[INFO] fetching crate sars 0.1.0... [INFO] testing sars-0.1.0 against try#b83b707f97d809763b7861afa7638871f3339a33 for pr-145838-1 [INFO] extracting crate sars 0.1.0 into /workspace/builds/worker-7-tc2/source [INFO] started tweaking crates.io crate sars 0.1.0 [INFO] finished tweaking crates.io crate sars 0.1.0 [INFO] tweaked toml for crates.io crate sars 0.1.0 written to /workspace/builds/worker-7-tc2/source/Cargo.toml [INFO] validating manifest of crates.io crate sars 0.1.0 on toolchain b83b707f97d809763b7861afa7638871f3339a33 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+b83b707f97d809763b7861afa7638871f3339a33" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate crates.io crate sars 0.1.0 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" "+b83b707f97d809763b7861afa7638871f3339a33" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-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" "+b83b707f97d809763b7861afa7638871f3339a33" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 546f0c990d9e6ab892febc42c6fdb180a3ef852119f847f863b2a26fb82a79e5 [INFO] running `Command { std: "docker" "start" "-a" "546f0c990d9e6ab892febc42c6fdb180a3ef852119f847f863b2a26fb82a79e5", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "546f0c990d9e6ab892febc42c6fdb180a3ef852119f847f863b2a26fb82a79e5", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "546f0c990d9e6ab892febc42c6fdb180a3ef852119f847f863b2a26fb82a79e5", kill_on_drop: false }` [INFO] [stdout] 546f0c990d9e6ab892febc42c6fdb180a3ef852119f847f863b2a26fb82a79e5 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-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" "+b83b707f97d809763b7861afa7638871f3339a33" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] ba209fad534bf85886e61fe2041b40e8a06899e27ed94d870f0546075ffb92a0 [INFO] running `Command { std: "docker" "start" "-a" "ba209fad534bf85886e61fe2041b40e8a06899e27ed94d870f0546075ffb92a0", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro2 v1.0.37 [INFO] [stderr] Compiling syn v1.0.91 [INFO] [stderr] Compiling libm v0.2.2 [INFO] [stderr] Compiling libc v0.2.123 [INFO] [stderr] Compiling serde_derive v1.0.136 [INFO] [stderr] Compiling serde v1.0.136 [INFO] [stderr] Compiling ppv-lite86 v0.2.16 [INFO] [stderr] Compiling rustversion v1.0.6 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling num-traits v0.2.14 [INFO] [stderr] Compiling num-integer v0.1.44 [INFO] [stderr] Compiling num-rational v0.4.0 [INFO] [stderr] Compiling indexmap v1.8.1 [INFO] [stderr] Compiling proc-macro-error v1.0.4 [INFO] [stderr] Compiling matrixmultiply v0.3.2 [INFO] [stderr] Compiling unicode-segmentation v1.9.0 [INFO] [stderr] Compiling hashbrown v0.11.2 [INFO] [stderr] Compiling paste v1.0.7 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Compiling regex-syntax v0.6.25 [INFO] [stderr] Compiling anyhow v1.0.56 [INFO] [stderr] Compiling csv-core v0.1.10 [INFO] [stderr] Compiling fixedbitset v0.4.1 [INFO] [stderr] Compiling ryu v1.0.9 [INFO] [stderr] Compiling heck v0.4.0 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling heck v0.3.3 [INFO] [stderr] Compiling either v1.6.1 [INFO] [stderr] Compiling fxhash v0.2.1 [INFO] [stderr] Compiling bit-set v0.5.2 [INFO] [stderr] Compiling os_str_bytes v6.0.0 [INFO] [stderr] Compiling triple_accel v0.4.0 [INFO] [stderr] Compiling bytecount v0.6.2 [INFO] [stderr] Compiling strum v0.23.0 [INFO] [stderr] Compiling termcolor v1.1.3 [INFO] [stderr] Compiling itertools v0.10.3 [INFO] [stderr] Compiling textwrap v0.15.0 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling getrandom v0.2.6 [INFO] [stderr] Compiling atty v0.2.14 [INFO] [stderr] Compiling quote v1.0.18 [INFO] [stderr] Compiling rand_core v0.6.3 [INFO] [stderr] Compiling petgraph v0.6.0 [INFO] [stderr] Compiling proc-macro-error-attr v1.0.4 [INFO] [stderr] Compiling rand_chacha v0.3.1 [INFO] [stderr] Compiling rand v0.8.5 [INFO] [stderr] Compiling num-complex v0.4.0 [INFO] [stderr] Compiling approx v0.5.1 [INFO] [stderr] Compiling itertools-num v0.1.3 [INFO] [stderr] Compiling ordered-float v1.1.1 [INFO] [stderr] Compiling simba v0.5.1 [INFO] [stderr] Compiling ndarray v0.15.4 [INFO] [stderr] Compiling regex v1.5.5 [INFO] [stderr] Compiling rand_distr v0.4.3 [INFO] [stderr] Compiling thiserror-impl v1.0.30 [INFO] [stderr] Compiling nalgebra-macros v0.1.0 [INFO] [stderr] Compiling derive-new v0.5.9 [INFO] [stderr] Compiling enum-map-derive v0.6.0 [INFO] [stderr] Compiling strum_macros v0.23.1 [INFO] [stderr] Compiling clap_derive v3.1.7 [INFO] [stderr] Compiling getset v0.1.2 [INFO] [stderr] Compiling enum-map v1.1.1 [INFO] [stderr] Compiling thiserror v1.0.30 [INFO] [stderr] Compiling bio-types v0.12.1 [INFO] [stderr] Compiling nalgebra v0.27.1 [INFO] [stderr] Compiling clap v3.1.8 [INFO] [stderr] Compiling bstr v0.2.17 [INFO] [stderr] Compiling vec_map v0.8.2 [INFO] [stderr] Compiling bv v0.11.1 [INFO] [stderr] Compiling multimap v0.8.3 [INFO] [stderr] Compiling bincode v1.3.3 [INFO] [stderr] Compiling csv v1.1.6 [INFO] [stderr] Compiling statrs v0.15.0 [INFO] [stderr] Compiling bio v0.41.0 [INFO] [stderr] Compiling sars v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused import: `std::path::Component::Prefix` [INFO] [stdout] --> src/commons.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use std::path::Component::Prefix; [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 import: `std::borrow::Borrow` [INFO] [stdout] --> src/suffix_array.rs:2:5 [INFO] [stdout] | [INFO] [stdout] 2 | use std::borrow::Borrow; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `Add` and `Deref` [INFO] [stdout] --> src/suffix_array.rs:6:16 [INFO] [stdout] | [INFO] [stdout] 6 | use std::ops::{Add, Deref}; [INFO] [stdout] | ^^^ ^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::time::Instant` [INFO] [stdout] --> src/suffix_array.rs:14:5 [INFO] [stdout] | [INFO] [stdout] 14 | use std::time::Instant; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `serde::de::Unexpected::Str` [INFO] [stdout] --> src/suffix_array.rs:15:5 [INFO] [stdout] | [INFO] [stdout] 15 | use serde::de::Unexpected::Str; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::borrow::Borrow` [INFO] [stdout] --> src/prefix_table.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use std::borrow::Borrow; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `max` [INFO] [stdout] --> src/prefix_table.rs:2:16 [INFO] [stdout] | [INFO] [stdout] 2 | use std::cmp::{max, min}; [INFO] [stdout] | ^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::time::Instant` [INFO] [stdout] --> src/prefix_table.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use std::time::Instant; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `B` [INFO] [stdout] --> src/prefix_table.rs:7:12 [INFO] [stdout] | [INFO] [stdout] 7 | use bstr::{B, ByteSlice}; [INFO] [stdout] | ^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `ByteSlice` [INFO] [stdout] --> src/prefix_table.rs:7:15 [INFO] [stdout] | [INFO] [stdout] 7 | use bstr::{B, ByteSlice}; [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `s` is never read [INFO] [stdout] --> src/suffix_array.rs:51:11 [INFO] [stdout] | [INFO] [stdout] 51 | let mut s = String::new(); [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: variable does not need to be mutable [INFO] [stdout] --> src/prefix_table.rs:16:35 [INFO] [stdout] | [INFO] [stdout] 16 | pub fn new(prefix_length: usize, mut reference: Vec, sa: &RawSuffixArray) -> PrefixTable { [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 `Result` that must be used [INFO] [stdout] --> src/suffix_array.rs:79:4 [INFO] [stdout] | [INFO] [stdout] 79 | file.write_all(pos.as_bytes()); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: this `Result` may be an `Err` variant, which should be handled [INFO] [stdout] = note: `#[warn(unused_must_use)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] help: use `let _ = ...` to ignore the resulting value [INFO] [stdout] | [INFO] [stdout] 79 | let _ = file.write_all(pos.as_bytes()); [INFO] [stdout] | +++++++ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::fmt::format` [INFO] [stdout] --> benchmark/benchmark.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use std::fmt::format; [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 import: `std::fs::File` [INFO] [stdout] --> benchmark/benchmark.rs:2:5 [INFO] [stdout] | [INFO] [stdout] 2 | use std::fs::File; [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::io::BufReader` [INFO] [stdout] --> benchmark/benchmark.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use std::io::BufReader; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Command` [INFO] [stdout] --> buildsa/buildsa.rs:1:26 [INFO] [stdout] | [INFO] [stdout] 1 | use clap::{arg, command, Command}; [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 import: `bio::alignment::AlignmentOperation::Ins` [INFO] [stdout] --> benchmark/benchmark.rs:5:5 [INFO] [stdout] | [INFO] [stdout] 5 | use bio::alignment::AlignmentOperation::Ins; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `BinaryFilePath` and `FastaFilePath` [INFO] [stdout] --> buildsa/buildsa.rs:3:12 [INFO] [stdout] | [INFO] [stdout] 3 | use sars::{BinaryFilePath, FastaFilePath, SuffixArray}; [INFO] [stdout] | ^^^^^^^^^^^^^^ ^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bio::io::bed::Records` [INFO] [stdout] --> benchmark/benchmark.rs:9:5 [INFO] [stdout] | [INFO] [stdout] 9 | use bio::io::bed::Records; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> benchmark/benchmark.rs:33:8 [INFO] [stdout] | [INFO] [stdout] 33 | let mut parts = rec.split_whitespace(); [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: function `bench_suffix_array_construction` is never used [INFO] [stdout] --> benchmark/benchmark.rs:12:4 [INFO] [stdout] | [INFO] [stdout] 12 | fn bench_suffix_array_construction() { [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: `Command` [INFO] [stdout] --> querysa/querysa.rs:1:26 [INFO] [stdout] | [INFO] [stdout] 1 | use clap::{arg, command, Command}; [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 `Result` that must be used [INFO] [stdout] --> querysa/querysa.rs:25:2 [INFO] [stdout] | [INFO] [stdout] 25 | SuffixArray::query(index_path, queries_path, query_mode, output_path); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: this `Result` may be an `Err` variant, which should be handled [INFO] [stdout] = note: `#[warn(unused_must_use)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] help: use `let _ = ...` to ignore the resulting value [INFO] [stdout] | [INFO] [stdout] 25 | let _ = SuffixArray::query(index_path, queries_path, query_mode, output_path); [INFO] [stdout] | +++++++ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused `Result` that must be used [INFO] [stdout] --> buildsa/buildsa.rs:19:2 [INFO] [stdout] | [INFO] [stdout] 19 | SuffixArray::build(prefix_table, reference.to_string(), output.to_string()); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: this `Result` may be an `Err` variant, which should be handled [INFO] [stdout] = note: `#[warn(unused_must_use)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] help: use `let _ = ...` to ignore the resulting value [INFO] [stdout] | [INFO] [stdout] 19 | let _ = SuffixArray::build(prefix_table, reference.to_string(), output.to_string()); [INFO] [stdout] | +++++++ [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 37.99s [INFO] [stderr] warning: the following packages contain code that will be rejected by a future version of Rust: nalgebra v0.27.1 [INFO] [stderr] note: to see what the problems were, use the option `--future-incompat-report`, or run `cargo report future-incompatibilities --id 4` [INFO] running `Command { std: "docker" "inspect" "ba209fad534bf85886e61fe2041b40e8a06899e27ed94d870f0546075ffb92a0", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "ba209fad534bf85886e61fe2041b40e8a06899e27ed94d870f0546075ffb92a0", kill_on_drop: false }` [INFO] [stdout] ba209fad534bf85886e61fe2041b40e8a06899e27ed94d870f0546075ffb92a0 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-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" "+b83b707f97d809763b7861afa7638871f3339a33" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] f05174569372762b5bda2dbd9d1e5f522b1f61eda145389e38cce9bc8d296f66 [INFO] running `Command { std: "docker" "start" "-a" "f05174569372762b5bda2dbd9d1e5f522b1f61eda145389e38cce9bc8d296f66", kill_on_drop: false }` [INFO] [stderr] Compiling sars v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused import: `std::path::Component::Prefix` [INFO] [stdout] --> src/commons.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use std::path::Component::Prefix; [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 import: `std::borrow::Borrow` [INFO] [stdout] --> src/suffix_array.rs:2:5 [INFO] [stdout] | [INFO] [stdout] 2 | use std::borrow::Borrow; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `Add` and `Deref` [INFO] [stdout] --> src/suffix_array.rs:6:16 [INFO] [stdout] | [INFO] [stdout] 6 | use std::ops::{Add, Deref}; [INFO] [stdout] | ^^^ ^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::time::Instant` [INFO] [stdout] --> src/suffix_array.rs:14:5 [INFO] [stdout] | [INFO] [stdout] 14 | use std::time::Instant; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `serde::de::Unexpected::Str` [INFO] [stdout] --> src/suffix_array.rs:15:5 [INFO] [stdout] | [INFO] [stdout] 15 | use serde::de::Unexpected::Str; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::borrow::Borrow` [INFO] [stdout] --> src/prefix_table.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use std::borrow::Borrow; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `max` [INFO] [stdout] --> src/prefix_table.rs:2:16 [INFO] [stdout] | [INFO] [stdout] 2 | use std::cmp::{max, min}; [INFO] [stdout] | ^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::time::Instant` [INFO] [stdout] --> src/prefix_table.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use std::time::Instant; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `B` [INFO] [stdout] --> src/prefix_table.rs:7:12 [INFO] [stdout] | [INFO] [stdout] 7 | use bstr::{B, ByteSlice}; [INFO] [stdout] | ^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `ByteSlice` [INFO] [stdout] --> src/prefix_table.rs:7:15 [INFO] [stdout] | [INFO] [stdout] 7 | use bstr::{B, ByteSlice}; [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `s` is never read [INFO] [stdout] --> src/suffix_array.rs:51:11 [INFO] [stdout] | [INFO] [stdout] 51 | let mut s = String::new(); [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: variable does not need to be mutable [INFO] [stdout] --> src/prefix_table.rs:16:35 [INFO] [stdout] | [INFO] [stdout] 16 | pub fn new(prefix_length: usize, mut reference: Vec, sa: &RawSuffixArray) -> PrefixTable { [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 `Result` that must be used [INFO] [stdout] --> src/suffix_array.rs:79:4 [INFO] [stdout] | [INFO] [stdout] 79 | file.write_all(pos.as_bytes()); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: this `Result` may be an `Err` variant, which should be handled [INFO] [stdout] = note: `#[warn(unused_must_use)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] help: use `let _ = ...` to ignore the resulting value [INFO] [stdout] | [INFO] [stdout] 79 | let _ = file.write_all(pos.as_bytes()); [INFO] [stdout] | +++++++ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::fmt::format` [INFO] [stdout] --> benchmark/benchmark.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use std::fmt::format; [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 import: `std::fs::File` [INFO] [stdout] --> benchmark/benchmark.rs:2:5 [INFO] [stdout] | [INFO] [stdout] 2 | use std::fs::File; [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::io::BufReader` [INFO] [stdout] --> benchmark/benchmark.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use std::io::BufReader; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bio::alignment::AlignmentOperation::Ins` [INFO] [stdout] --> benchmark/benchmark.rs:5:5 [INFO] [stdout] | [INFO] [stdout] 5 | use bio::alignment::AlignmentOperation::Ins; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bio::io::bed::Records` [INFO] [stdout] --> benchmark/benchmark.rs:9:5 [INFO] [stdout] | [INFO] [stdout] 9 | use bio::io::bed::Records; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> benchmark/benchmark.rs:33:8 [INFO] [stdout] | [INFO] [stdout] 33 | let mut parts = rec.split_whitespace(); [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: function `bench_suffix_array_construction` is never used [INFO] [stdout] --> benchmark/benchmark.rs:12:4 [INFO] [stdout] | [INFO] [stdout] 12 | fn bench_suffix_array_construction() { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0432]: unresolved import `crate::commons::commons` [INFO] [stdout] --> src/commons.rs:28:22 [INFO] [stdout] | [INFO] [stdout] 28 | use crate::commons::commons::longest_common_prefix; [INFO] [stdout] | ^^^^^^^ could not find `commons` in `commons` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0432]: unresolved import `crate::commons::query_mode` [INFO] [stdout] --> src/suffix_array.rs:230:22 [INFO] [stdout] | [INFO] [stdout] 230 | use crate::commons::query_mode::QueryMode; [INFO] [stdout] | ^^^^^^^^^^ could not find `query_mode` in `commons` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Command` [INFO] [stdout] --> querysa/querysa.rs:1:26 [INFO] [stdout] | [INFO] [stdout] 1 | use clap::{arg, command, Command}; [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 import: `std::path::Component::Prefix` [INFO] [stdout] --> src/commons.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use std::path::Component::Prefix; [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 import: `std::borrow::Borrow` [INFO] [stdout] --> src/suffix_array.rs:2:5 [INFO] [stdout] | [INFO] [stdout] 2 | use std::borrow::Borrow; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `Add` and `Deref` [INFO] [stdout] --> src/suffix_array.rs:6:16 [INFO] [stdout] | [INFO] [stdout] 6 | use std::ops::{Add, Deref}; [INFO] [stdout] | ^^^ ^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::time::Instant` [INFO] [stdout] --> src/suffix_array.rs:14:5 [INFO] [stdout] | [INFO] [stdout] 14 | use std::time::Instant; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `serde::de::Unexpected::Str` [INFO] [stdout] --> src/suffix_array.rs:15:5 [INFO] [stdout] | [INFO] [stdout] 15 | use serde::de::Unexpected::Str; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::borrow::Borrow` [INFO] [stdout] --> src/prefix_table.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use std::borrow::Borrow; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `max` [INFO] [stdout] --> src/prefix_table.rs:2:16 [INFO] [stdout] | [INFO] [stdout] 2 | use std::cmp::{max, min}; [INFO] [stdout] | ^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::time::Instant` [INFO] [stdout] --> src/prefix_table.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use std::time::Instant; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `B` [INFO] [stdout] --> src/prefix_table.rs:7:12 [INFO] [stdout] | [INFO] [stdout] 7 | use bstr::{B, ByteSlice}; [INFO] [stdout] | ^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused `Result` that must be used [INFO] [stdout] --> querysa/querysa.rs:25:2 [INFO] [stdout] | [INFO] [stdout] 25 | SuffixArray::query(index_path, queries_path, query_mode, output_path); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: this `Result` may be an `Err` variant, which should be handled [INFO] [stdout] = note: `#[warn(unused_must_use)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] help: use `let _ = ...` to ignore the resulting value [INFO] [stdout] | [INFO] [stdout] 25 | let _ = SuffixArray::query(index_path, queries_path, query_mode, output_path); [INFO] [stdout] | +++++++ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Command` [INFO] [stdout] --> buildsa/buildsa.rs:1:26 [INFO] [stdout] | [INFO] [stdout] 1 | use clap::{arg, command, Command}; [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: `BinaryFilePath` and `FastaFilePath` [INFO] [stdout] --> buildsa/buildsa.rs:3:12 [INFO] [stdout] | [INFO] [stdout] 3 | use sars::{BinaryFilePath, FastaFilePath, SuffixArray}; [INFO] [stdout] | ^^^^^^^^^^^^^^ ^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `ByteSlice` [INFO] [stdout] --> src/prefix_table.rs:7:15 [INFO] [stdout] | [INFO] [stdout] 7 | use bstr::{B, ByteSlice}; [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused `Result` that must be used [INFO] [stdout] --> buildsa/buildsa.rs:19:2 [INFO] [stdout] | [INFO] [stdout] 19 | SuffixArray::build(prefix_table, reference.to_string(), output.to_string()); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: this `Result` may be an `Err` variant, which should be handled [INFO] [stdout] = note: `#[warn(unused_must_use)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] help: use `let _ = ...` to ignore the resulting value [INFO] [stdout] | [INFO] [stdout] 19 | let _ = SuffixArray::build(prefix_table, reference.to_string(), output.to_string()); [INFO] [stdout] | +++++++ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `s` is never read [INFO] [stdout] --> src/suffix_array.rs:51:11 [INFO] [stdout] | [INFO] [stdout] 51 | let mut s = String::new(); [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: unused variable: `sa` [INFO] [stdout] --> src/suffix_array.rs:259:7 [INFO] [stdout] | [INFO] [stdout] 259 | let sa = SuffixArray { [INFO] [stdout] | ^^ help: if this is intentional, prefix it with an underscore: `_sa` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/prefix_table.rs:16:35 [INFO] [stdout] | [INFO] [stdout] 16 | pub fn new(prefix_length: usize, mut reference: Vec, sa: &RawSuffixArray) -> PrefixTable { [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] For more information about this error, try `rustc --explain E0432`. [INFO] [stdout] [INFO] [stderr] error: could not compile `sars` (lib test) due to 2 previous errors; 13 warnings emitted [INFO] [stderr] warning: build failed, waiting for other jobs to finish... [INFO] running `Command { std: "docker" "inspect" "f05174569372762b5bda2dbd9d1e5f522b1f61eda145389e38cce9bc8d296f66", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "f05174569372762b5bda2dbd9d1e5f522b1f61eda145389e38cce9bc8d296f66", kill_on_drop: false }` [INFO] [stdout] f05174569372762b5bda2dbd9d1e5f522b1f61eda145389e38cce9bc8d296f66