[INFO] cloning repository https://github.com/Cardosaum/cdr3-parser [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/Cardosaum/cdr3-parser" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FCardosaum%2Fcdr3-parser", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FCardosaum%2Fcdr3-parser'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 82cbc869302ec50456545956aa90420612a72be2 [INFO] checking Cardosaum/cdr3-parser against master#90442458ac46b1d5eed752c316da25450f67285b for pr-81477 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FCardosaum%2Fcdr3-parser" "/workspace/builds/worker-5/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-5/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/Cardosaum/cdr3-parser on toolchain 90442458ac46b1d5eed752c316da25450f67285b [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+90442458ac46b1d5eed752c316da25450f67285b" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/Cardosaum/cdr3-parser [INFO] finished tweaking git repo https://github.com/Cardosaum/cdr3-parser [INFO] tweaked toml for git repo https://github.com/Cardosaum/cdr3-parser written to /workspace/builds/worker-5/source/Cargo.toml [INFO] crate git repo https://github.com/Cardosaum/cdr3-parser already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+90442458ac46b1d5eed752c316da25450f67285b" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/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:ea7d7bff36b2ba8ce4de8bba1d2dea90376bc481f1a945a913994a8c492e40c1" "/opt/rustwide/cargo-home/bin/cargo" "+90442458ac46b1d5eed752c316da25450f67285b" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 0df652c56f871bedf950c85b48c3b60687c7338561566b3e22f1b9f7fed721cd [INFO] running `Command { std: "docker" "start" "-a" "0df652c56f871bedf950c85b48c3b60687c7338561566b3e22f1b9f7fed721cd", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "0df652c56f871bedf950c85b48c3b60687c7338561566b3e22f1b9f7fed721cd", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "0df652c56f871bedf950c85b48c3b60687c7338561566b3e22f1b9f7fed721cd", kill_on_drop: false }` [INFO] [stdout] 0df652c56f871bedf950c85b48c3b60687c7338561566b3e22f1b9f7fed721cd [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/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" "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:ea7d7bff36b2ba8ce4de8bba1d2dea90376bc481f1a945a913994a8c492e40c1" "/opt/rustwide/cargo-home/bin/cargo" "+90442458ac46b1d5eed752c316da25450f67285b" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 65c65a9eac4a25aca5141c6c6277f281adbf6cce01e9d0743e6b14e683caab12 [INFO] running `Command { std: "docker" "start" "-a" "65c65a9eac4a25aca5141c6c6277f281adbf6cce01e9d0743e6b14e683caab12", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Compiling autocfg v1.0.1 [INFO] [stderr] Compiling syn v1.0.73 [INFO] [stderr] Compiling libc v0.2.97 [INFO] [stderr] Checking cfg-if v1.0.0 [INFO] [stderr] Compiling serde_derive v1.0.126 [INFO] [stderr] Checking lazy_static v1.4.0 [INFO] [stderr] Compiling memchr v2.4.0 [INFO] [stderr] Checking ppv-lite86 v0.2.10 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling strsim v0.10.0 [INFO] [stderr] Checking rawpointer v0.2.1 [INFO] [stderr] Compiling feature-probe v0.1.1 [INFO] [stderr] Checking scopeguard v1.1.0 [INFO] [stderr] Compiling anyhow v1.0.41 [INFO] [stderr] Checking either v1.6.1 [INFO] [stderr] Compiling ndarray v0.14.0 [INFO] [stderr] Checking regex-automata v0.1.10 [INFO] [stderr] Checking regex-syntax v0.6.25 [INFO] [stderr] Checking unicode-width v0.1.8 [INFO] [stderr] Compiling bio v0.34.0 [INFO] [stderr] Compiling serde_json v1.0.64 [INFO] [stderr] Checking fnv v1.0.7 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking strum v0.20.0 [INFO] [stderr] Checking triple_accel v0.3.4 [INFO] [stderr] Checking bytecount v0.6.2 [INFO] [stderr] Checking typenum v1.13.0 [INFO] [stderr] 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[INFO] [stderr] Checking rand_chacha v0.2.2 [INFO] [stderr] Checking crossbeam-deque v0.8.0 [INFO] [stderr] Checking petgraph v0.5.1 [INFO] [stderr] Checking rand v0.7.3 [INFO] [stderr] Checking rayon-core v1.9.1 [INFO] [stderr] Checking regex v1.5.4 [INFO] [stderr] Checking approx v0.3.2 [INFO] [stderr] Checking num-complex v0.3.1 [INFO] [stderr] Checking ordered-float v1.1.1 [INFO] [stderr] Checking itertools-num v0.1.3 [INFO] [stderr] Checking alga v0.9.3 [INFO] [stderr] Checking rand_distr v0.2.2 [INFO] [stderr] Checking nalgebra v0.19.0 [INFO] [stderr] Compiling darling_core v0.13.0 [INFO] [stderr] Compiling velcro_core v0.5.2 [INFO] [stderr] Compiling thiserror-impl v1.0.25 [INFO] [stderr] Compiling darling_macro v0.13.0 [INFO] [stderr] Compiling strum_macros v0.20.1 [INFO] [stderr] Compiling enum-map-derive v0.4.6 [INFO] [stderr] Compiling derive-new v0.5.9 [INFO] [stderr] Compiling velcro_macros v0.5.2 [INFO] [stderr] Compiling getset v0.0.9 [INFO] [stderr] Checking velcro v0.5.3 [INFO] [stderr] Checking enum-map v0.6.4 [INFO] [stderr] Compiling darling v0.13.0 [INFO] [stderr] Compiling serde_with_macros v1.4.2 [INFO] [stderr] Checking thiserror v1.0.25 [INFO] [stderr] Checking bio-types v0.11.0 [INFO] [stderr] Checking serde v1.0.126 [INFO] [stderr] Checking statrs v0.13.0 [INFO] [stderr] Checking vec_map v0.8.2 [INFO] [stderr] Checking bstr v0.2.16 [INFO] [stderr] Checking multimap v0.8.3 [INFO] [stderr] Checking serde_with v1.9.3 [INFO] [stderr] Checking clap v2.27.1 [INFO] [stderr] Checking csv v1.1.6 [INFO] [stderr] Checking cdr3-parser v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused imports: `Arg`, `Error`, `SubCommand` [INFO] [stdout] --> src/main.rs:15:17 [INFO] [stdout] | [INFO] [stdout] 15 | use clap::{App, Arg, Error, SubCommand}; [INFO] [stdout] | ^^^ ^^^^^ ^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `csv::Writer` [INFO] [stdout] --> src/main.rs:16:5 [INFO] [stdout] | [INFO] [stdout] 16 | use csv::Writer; [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Deserialize` [INFO] [stdout] --> src/main.rs:20:13 [INFO] [stdout] | [INFO] [stdout] 20 | use serde::{Deserialize, Serialize}; [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `OpenOptions`, `self` [INFO] [stdout] --> src/main.rs:24:15 [INFO] [stdout] | [INFO] [stdout] 24 | use std::fs::{self, File, OpenOptions}; [INFO] [stdout] | ^^^^ ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `self` [INFO] [stdout] --> src/main.rs:25:15 [INFO] [stdout] | [INFO] [stdout] 25 | use std::io::{self, prelude::*, BufReader}; [INFO] [stdout] | ^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `Arg`, `Error`, `SubCommand` [INFO] [stdout] --> src/main.rs:15:17 [INFO] [stdout] | [INFO] [stdout] 15 | use clap::{App, Arg, Error, SubCommand}; [INFO] [stdout] | ^^^ ^^^^^ ^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `csv::Writer` [INFO] [stdout] --> src/main.rs:16:5 [INFO] [stdout] | [INFO] [stdout] 16 | use csv::Writer; [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Deserialize` [INFO] [stdout] --> src/main.rs:20:13 [INFO] [stdout] | [INFO] [stdout] 20 | use serde::{Deserialize, Serialize}; [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `OpenOptions`, `self` [INFO] [stdout] --> src/main.rs:24:15 [INFO] [stdout] | [INFO] [stdout] 24 | use std::fs::{self, File, OpenOptions}; [INFO] [stdout] | ^^^^ ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `self` [INFO] [stdout] --> src/main.rs:25:15 [INFO] [stdout] | [INFO] [stdout] 25 | use std::io::{self, prelude::*, BufReader}; [INFO] [stdout] | ^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `cdr3_prop` [INFO] [stdout] --> src/main.rs:129:9 [INFO] [stdout] | [INFO] [stdout] 129 | let cdr3_prop = build_cdr3_struct(cdr3_dict.first_entry().unwrap().key().to_string()); [INFO] [stdout] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_cdr3_prop` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `sequence` [INFO] [stdout] --> src/main.rs:209:20 [INFO] [stdout] | [INFO] [stdout] 209 | fn aa_groups<'seq>(sequence: String) -> BTreeMap> { [INFO] [stdout] | ^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_sequence` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `aa` [INFO] [stdout] --> src/main.rs:316:13 [INFO] [stdout] | [INFO] [stdout] 316 | let aa = match monoisotopic_protein_weights.get_key_value(&str::from_utf8(&[c]).unwrap()) { [INFO] [stdout] | ^^ help: if this is intentional, prefix it with an underscore: `_aa` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `output_file` [INFO] [stdout] --> src/main.rs:335:58 [INFO] [stdout] | [INFO] [stdout] 335 | fn write_cdr3_attributes(cdr3_attributes: Vec, output_file: PathBuf) -> Result<()> { [INFO] [stdout] | ^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_output_file` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/main.rs:162:15 [INFO] [stdout] | [INFO] [stdout] 162 | fn parse_file(mut input_file: PathBuf) -> Vec { [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: unused variable: `cdr3_prop` [INFO] [stdout] --> src/main.rs:129:9 [INFO] [stdout] | [INFO] [stdout] 129 | let cdr3_prop = build_cdr3_struct(cdr3_dict.first_entry().unwrap().key().to_string()); [INFO] [stdout] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_cdr3_prop` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `sequence` [INFO] [stdout] --> src/main.rs:209:20 [INFO] [stdout] | [INFO] [stdout] 209 | fn aa_groups<'seq>(sequence: String) -> BTreeMap> { [INFO] [stdout] | ^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_sequence` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `aa` [INFO] [stdout] --> src/main.rs:316:13 [INFO] [stdout] | [INFO] [stdout] 316 | let aa = match monoisotopic_protein_weights.get_key_value(&str::from_utf8(&[c]).unwrap()) { [INFO] [stdout] | ^^ help: if this is intentional, prefix it with an underscore: `_aa` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `output_file` [INFO] [stdout] --> src/main.rs:335:58 [INFO] [stdout] | [INFO] [stdout] 335 | fn write_cdr3_attributes(cdr3_attributes: Vec, output_file: PathBuf) -> Result<()> { [INFO] [stdout] | ^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_output_file` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `aa_groups` [INFO] [stdout] --> src/main.rs:209:4 [INFO] [stdout] | [INFO] [stdout] 209 | fn aa_groups<'seq>(sequence: String) -> BTreeMap> { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/main.rs:162:15 [INFO] [stdout] | [INFO] [stdout] 162 | fn parse_file(mut input_file: PathBuf) -> Vec { [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: structure field `MW` should have a snake case name [INFO] [stdout] --> src/main.rs:37:5 [INFO] [stdout] | [INFO] [stdout] 37 | MW: f64, [INFO] [stdout] | ^^ help: convert the identifier to snake case: `mw` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(non_snake_case)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: structure field `AV` should have a snake case name [INFO] [stdout] --> src/main.rs:38:5 [INFO] [stdout] | [INFO] [stdout] 38 | AV: f64, [INFO] [stdout] | ^^ help: convert the identifier to snake case: `av` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused `Result` that must be used [INFO] [stdout] --> src/main.rs:159:5 [INFO] [stdout] | [INFO] [stdout] 159 | write_cdr3_attributes(cdr3_sequences_attributes, output_file); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_must_use)]` on by default [INFO] [stdout] = note: this `Result` may be an `Err` variant, which should be handled [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `aa_groups` [INFO] [stdout] --> src/main.rs:209:4 [INFO] [stdout] | [INFO] [stdout] 209 | fn aa_groups<'seq>(sequence: String) -> BTreeMap> { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 14 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: structure field `MW` should have a snake case name [INFO] [stdout] --> src/main.rs:37:5 [INFO] [stdout] | [INFO] [stdout] 37 | MW: f64, [INFO] [stdout] | ^^ help: convert the identifier to snake case: `mw` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(non_snake_case)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: structure field `AV` should have a snake case name [INFO] [stdout] --> src/main.rs:38:5 [INFO] [stdout] | [INFO] [stdout] 38 | AV: f64, [INFO] [stdout] | ^^ help: convert the identifier to snake case: `av` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused `Result` that must be used [INFO] [stdout] --> src/main.rs:159:5 [INFO] [stdout] | [INFO] [stdout] 159 | write_cdr3_attributes(cdr3_sequences_attributes, output_file); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_must_use)]` on by default [INFO] [stdout] = note: this `Result` may be an `Err` variant, which should be handled [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 14 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 56.88s [INFO] running `Command { std: "docker" "inspect" "65c65a9eac4a25aca5141c6c6277f281adbf6cce01e9d0743e6b14e683caab12", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "65c65a9eac4a25aca5141c6c6277f281adbf6cce01e9d0743e6b14e683caab12", kill_on_drop: false }` [INFO] [stdout] 65c65a9eac4a25aca5141c6c6277f281adbf6cce01e9d0743e6b14e683caab12