[INFO] fetching crate bio_files 0.2.8... [INFO] checking bio_files-0.2.8 against try#c659ee110de67e82444e4b6c8407c1a9af9c2cf6 for pr-145608-1 [INFO] extracting crate bio_files 0.2.8 into /workspace/builds/worker-5-tc2/source [INFO] started tweaking crates.io crate bio_files 0.2.8 [INFO] finished tweaking crates.io crate bio_files 0.2.8 [INFO] tweaked toml for crates.io crate bio_files 0.2.8 written to /workspace/builds/worker-5-tc2/source/Cargo.toml [INFO] validating manifest of crates.io crate bio_files 0.2.8 on toolchain c659ee110de67e82444e4b6c8407c1a9af9c2cf6 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+c659ee110de67e82444e4b6c8407c1a9af9c2cf6" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate crates.io crate bio_files 0.2.8 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" "+c659ee110de67e82444e4b6c8407c1a9af9c2cf6" "fetch" "--manifest-path" "Cargo.toml", 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] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/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" "+c659ee110de67e82444e4b6c8407c1a9af9c2cf6" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] cdeebb2439242f45736e20f638d836cd5e25f9a902f73f73990f044b89457c38 [INFO] running `Command { std: "docker" "start" "-a" "cdeebb2439242f45736e20f638d836cd5e25f9a902f73f73990f044b89457c38", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "cdeebb2439242f45736e20f638d836cd5e25f9a902f73f73990f044b89457c38", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "cdeebb2439242f45736e20f638d836cd5e25f9a902f73f73990f044b89457c38", kill_on_drop: false }` [INFO] [stdout] cdeebb2439242f45736e20f638d836cd5e25f9a902f73f73990f044b89457c38 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/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" "+c659ee110de67e82444e4b6c8407c1a9af9c2cf6" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] eb82025a6f727f65e772f73751f0fed64adcc9acec5bb2ab5ae3f652f207303c [INFO] running `Command { std: "docker" "start" "-a" "eb82025a6f727f65e772f73751f0fed64adcc9acec5bb2ab5ae3f652f207303c", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.174 [INFO] [stderr] Compiling cc v1.2.29 [INFO] [stderr] Compiling matrixmultiply v0.3.10 [INFO] [stderr] Checking bytemuck v1.23.1 [INFO] [stderr] Compiling indexmap v2.10.0 [INFO] [stderr] Compiling winnow v0.7.11 [INFO] [stderr] Compiling syn v2.0.104 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Checking num-complex v0.4.6 [INFO] [stderr] Checking num-integer v0.1.46 [INFO] [stderr] Compiling httparse v1.10.1 [INFO] [stderr] Checking approx v0.5.1 [INFO] [stderr] Compiling rustls v0.23.28 [INFO] [stderr] Checking http v1.3.1 [INFO] [stderr] Checking hashbrown v0.15.4 [INFO] [stderr] Compiling bincode_derive v2.0.1 [INFO] [stderr] Checking regex-automata v0.4.9 [INFO] [stderr] Checking ordered-float v2.10.1 [INFO] [stderr] Checking safe_arch v0.7.4 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Checking num-rational v0.4.2 [INFO] [stderr] Checking webpki-roots v1.0.1 [INFO] [stderr] Checking unty v0.0.4 [INFO] [stderr] Checking chrono v0.4.41 [INFO] [stderr] Checking flate2 v1.1.2 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Checking webpki-roots v0.26.11 [INFO] [stderr] Checking rustls-pemfile v2.2.0 [INFO] [stderr] Checking csv-core v0.1.12 [INFO] [stderr] Checking bit-vec v0.8.0 [INFO] [stderr] Checking bincode v2.0.1 [INFO] [stderr] Checking fixedbitset v0.5.7 [INFO] [stderr] Checking itertools v0.14.0 [INFO] [stderr] Checking ndarray v0.16.1 [INFO] [stderr] Checking ordered-float v5.0.0 [INFO] [stderr] Checking itertools-num v0.1.3 [INFO] [stderr] Checking ureq-proto v0.4.2 [INFO] [stderr] Checking bit-set v0.8.0 [INFO] [stderr] Checking editdistancek v1.0.2 [INFO] [stderr] Checking wide v0.7.33 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking bytecount v0.6.9 [INFO] [stderr] Checking strum v0.26.3 [INFO] [stderr] Checking triple_accel v0.4.0 [INFO] [stderr] Checking lin_alg v1.3.5 [INFO] [stderr] Compiling ring v0.17.14 [INFO] [stderr] Checking petgraph v0.8.2 [INFO] [stderr] Checking getrandom v0.2.16 [INFO] [stderr] Checking getrandom v0.3.3 [INFO] [stderr] Checking rand_core v0.6.4 [INFO] [stderr] Checking rand_core v0.9.3 [INFO] [stderr] Checking rand_chacha v0.3.1 [INFO] [stderr] Checking rand_chacha v0.9.0 [INFO] [stderr] Checking rand v0.8.5 [INFO] [stderr] Checking rand v0.9.1 [INFO] [stderr] Compiling synstructure v0.13.2 [INFO] [stderr] Compiling toml_edit v0.22.27 [INFO] [stderr] Compiling zerofrom-derive v0.1.6 [INFO] [stderr] Compiling yoke-derive v0.8.0 [INFO] [stderr] Compiling zerovec-derive v0.11.1 [INFO] [stderr] Compiling displaydoc v0.2.5 [INFO] [stderr] Compiling serde_derive v1.0.219 [INFO] [stderr] Compiling thiserror-impl v1.0.69 [INFO] [stderr] Compiling strum_macros v0.26.4 [INFO] [stderr] Checking rand_distr v0.4.3 [INFO] [stderr] Checking regex v1.11.2 [INFO] [stderr] Compiling thiserror-impl v2.0.12 [INFO] [stderr] Compiling derive-new v0.6.0 [INFO] [stderr] Compiling enum-map-derive v0.17.0 [INFO] [stderr] Checking simba v0.9.0 [INFO] [stderr] Checking zerofrom v0.1.6 [INFO] [stderr] Checking enum-map v2.7.3 [INFO] [stderr] Checking yoke v0.8.0 [INFO] [stderr] Checking thiserror v1.0.69 [INFO] [stderr] Checking zerotrie v0.2.2 [INFO] [stderr] Checking zerovec v0.11.2 [INFO] [stderr] Checking thiserror v2.0.12 [INFO] [stderr] Compiling proc-macro-crate v3.3.0 [INFO] [stderr] Checking bio-types v1.0.4 [INFO] [stderr] Checking serde v1.0.219 [INFO] [stderr] Compiling num_enum_derive v0.7.4 [INFO] [stderr] Checking tinystr v0.8.1 [INFO] [stderr] Checking potential_utf v0.1.2 [INFO] [stderr] Checking icu_collections v2.0.0 [INFO] [stderr] Checking icu_locale_core v2.0.0 [INFO] [stderr] Checking num_enum v0.7.4 [INFO] [stderr] Checking icu_provider v2.0.0 [INFO] [stderr] Checking na_seq v0.3.1 [INFO] [stderr] Checking icu_normalizer v2.0.0 [INFO] [stderr] Checking icu_properties v2.0.1 [INFO] [stderr] Checking rustls-webpki v0.103.3 [INFO] [stderr] Checking idna_adapter v1.2.1 [INFO] [stderr] Checking idna v1.0.3 [INFO] [stderr] Checking url v2.5.4 [INFO] [stderr] Checking serde_json v1.0.140 [INFO] [stderr] Checking serde-value v0.7.0 [INFO] [stderr] Checking multimap v0.10.1 [INFO] [stderr] Checking csv v1.3.1 [INFO] [stderr] Checking vec_map v0.8.2 [INFO] [stderr] Checking bv v0.11.1 [INFO] [stderr] Checking webbrowser v1.0.5 [INFO] [stderr] Checking nalgebra v0.33.2 [INFO] [stderr] Checking serde-aux v4.7.0 [INFO] [stderr] Checking ureq v3.0.12 [INFO] [stderr] Checking bio_apis v0.1.6 [INFO] [stderr] Checking statrs v0.18.0 [INFO] [stderr] Checking bio v2.3.0 [INFO] [stderr] Checking bio_files v0.2.8 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused variable: `map_2fo_fc` [INFO] [stdout] --> src/map.rs:640:9 [INFO] [stdout] | [INFO] [stdout] 640 | let map_2fo_fc = rcsb::load_validation_2fo_fc_cif(ident) [INFO] [stdout] | ^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_map_2fo_fc` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `map_2fo_fc` [INFO] [stdout] --> src/map.rs:640:9 [INFO] [stdout] | [INFO] [stdout] 640 | let map_2fo_fc = rcsb::load_validation_2fo_fc_cif(ident) [INFO] [stdout] | ^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_map_2fo_fc` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `ss_load_time` [INFO] [stdout] --> src/mmcif.rs:230:13 [INFO] [stdout] | [INFO] [stdout] 230 | let ss_load_time = ss_load.elapsed(); [INFO] [stdout] | ^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_ss_load_time` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `res` [INFO] [stdout] --> src/mmcif.rs:234:13 [INFO] [stdout] | [INFO] [stdout] 234 | for res in &residues { [INFO] [stdout] | ^^^ help: if this is intentional, prefix it with an underscore: `_res` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `ss_load_time` [INFO] [stdout] --> src/mmcif.rs:230:13 [INFO] [stdout] | [INFO] [stdout] 230 | let ss_load_time = ss_load.elapsed(); [INFO] [stdout] | ^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_ss_load_time` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `res` [INFO] [stdout] --> src/mmcif.rs:234:13 [INFO] [stdout] | [INFO] [stdout] 234 | for res in &residues { [INFO] [stdout] | ^^^ help: if this is intentional, prefix it with an underscore: `_res` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: fields `file_version`, `tag_name`, `tag_number`, `element_type_code`, and `data_size` are never read [INFO] [stdout] --> src/ab1.rs:53:9 [INFO] [stdout] | [INFO] [stdout] 52 | struct Header { [INFO] [stdout] | ------ fields in this struct [INFO] [stdout] 53 | pub file_version: u16, [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] 54 | pub tag_name: Seq, // 4 bytes always. [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] 55 | pub tag_number: u32, [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] 56 | pub element_type_code: u16, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] ... [INFO] [stdout] 59 | pub data_size: u32, [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `Header` 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: fields `file_version`, `tag_name`, `tag_number`, `element_type_code`, and `data_size` are never read [INFO] [stdout] --> src/ab1.rs:53:9 [INFO] [stdout] | [INFO] [stdout] 52 | struct Header { [INFO] [stdout] | ------ fields in this struct [INFO] [stdout] 53 | pub file_version: u16, [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] 54 | pub tag_name: Seq, // 4 bytes always. [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] 55 | pub tag_number: u32, [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] 56 | pub element_type_code: u16, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] ... [INFO] [stdout] 59 | pub data_size: u32, [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `Header` 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: function `parse_abi_tag` is never used [INFO] [stdout] --> src/ab1.rs:306:4 [INFO] [stdout] | [INFO] [stdout] 306 | fn parse_abi_tag(data: &[u8]) -> io::Result<(String, String)> { [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `parse_abi_tag` is never used [INFO] [stdout] --> src/ab1.rs:306:4 [INFO] [stdout] | [INFO] [stdout] 306 | fn parse_abi_tag(data: &[u8]) -> io::Result<(String, String)> { [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `abi_trim` is never used [INFO] [stdout] --> src/ab1.rs:316:4 [INFO] [stdout] | [INFO] [stdout] 316 | fn abi_trim(seq_record: &fastq::Record) -> fastq::Record { [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `abi_trim` is never used [INFO] [stdout] --> src/ab1.rs:316:4 [INFO] [stdout] | [INFO] [stdout] 316 | fn abi_trim(seq_record: &fastq::Record) -> fastq::Record { [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field `0` is never read [INFO] [stdout] --> src/ab1.rs:373:9 [INFO] [stdout] | [INFO] [stdout] 373 | U32(Vec), [INFO] [stdout] | --- ^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | field in this variant [INFO] [stdout] | [INFO] [stdout] = note: `TagData` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] help: consider changing the field to be of unit type to suppress this warning while preserving the field numbering, or remove the field [INFO] [stdout] | [INFO] [stdout] 373 - U32(Vec), [INFO] [stdout] 373 + U32(()), [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field `0` is never read [INFO] [stdout] --> src/ab1.rs:373:9 [INFO] [stdout] | [INFO] [stdout] 373 | U32(Vec), [INFO] [stdout] | --- ^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | field in this variant [INFO] [stdout] | [INFO] [stdout] = note: `TagData` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] help: consider changing the field to be of unit type to suppress this warning while preserving the field numbering, or remove the field [INFO] [stdout] | [INFO] [stdout] 373 - U32(Vec), [INFO] [stdout] 373 + U32(()), [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variant `U8` is never constructed [INFO] [stdout] --> src/ab1.rs:371:5 [INFO] [stdout] | [INFO] [stdout] 370 | enum TagData { [INFO] [stdout] | ------- variant in this enum [INFO] [stdout] 371 | U8(Vec), [INFO] [stdout] | ^^ [INFO] [stdout] | [INFO] [stdout] = note: `TagData` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `read_string` is never used [INFO] [stdout] --> src/ab1.rs:428:4 [INFO] [stdout] | [INFO] [stdout] 428 | fn read_string(reader: &mut R, length: usize) -> io::Result { [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `density_from_2fo_fc_rcsb` is never used [INFO] [stdout] --> src/map.rs:637:4 [INFO] [stdout] | [INFO] [stdout] 637 | fn density_from_2fo_fc_rcsb(ident: &str) -> io::Result { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: enum `LoopKind` is never used [INFO] [stdout] --> src/mmcif_aux.rs:13:6 [INFO] [stdout] | [INFO] [stdout] 13 | enum LoopKind { [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `load_ss` is never used [INFO] [stdout] --> src/mmcif_aux.rs:20:8 [INFO] [stdout] | [INFO] [stdout] 20 | pub fn load_ss(mut data: R) -> io::Result> { [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variant `U8` is never constructed [INFO] [stdout] --> src/ab1.rs:371:5 [INFO] [stdout] | [INFO] [stdout] 370 | enum TagData { [INFO] [stdout] | ------- variant in this enum [INFO] [stdout] 371 | U8(Vec), [INFO] [stdout] | ^^ [INFO] [stdout] | [INFO] [stdout] = note: `TagData` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `read_string` is never used [INFO] [stdout] --> src/ab1.rs:428:4 [INFO] [stdout] | [INFO] [stdout] 428 | fn read_string(reader: &mut R, length: usize) -> io::Result { [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `density_from_2fo_fc_rcsb` is never used [INFO] [stdout] --> src/map.rs:637:4 [INFO] [stdout] | [INFO] [stdout] 637 | fn density_from_2fo_fc_rcsb(ident: &str) -> io::Result { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: enum `LoopKind` is never used [INFO] [stdout] --> src/mmcif_aux.rs:13:6 [INFO] [stdout] | [INFO] [stdout] 13 | enum LoopKind { [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `load_ss` is never used [INFO] [stdout] --> src/mmcif_aux.rs:20:8 [INFO] [stdout] | [INFO] [stdout] 20 | pub fn load_ss(mut data: R) -> io::Result> { [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 39.92s [INFO] running `Command { std: "docker" "inspect" "eb82025a6f727f65e772f73751f0fed64adcc9acec5bb2ab5ae3f652f207303c", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "eb82025a6f727f65e772f73751f0fed64adcc9acec5bb2ab5ae3f652f207303c", kill_on_drop: false }` [INFO] [stdout] eb82025a6f727f65e772f73751f0fed64adcc9acec5bb2ab5ae3f652f207303c