[INFO] cloning repository https://github.com/SorenHeidelbach/rustymotif [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/SorenHeidelbach/rustymotif" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FSorenHeidelbach%2Frustymotif", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FSorenHeidelbach%2Frustymotif'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] a7c417318d3c4e01aaac754b173851a5f24023bd [INFO] testing SorenHeidelbach/rustymotif against master#414482f6a0d4e7290f614300581a0b55442552a3 for pr-140985 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FSorenHeidelbach%2Frustymotif" "/workspace/builds/worker-2-tc1/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-2-tc1/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/SorenHeidelbach/rustymotif on toolchain 414482f6a0d4e7290f614300581a0b55442552a3 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+414482f6a0d4e7290f614300581a0b55442552a3" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/SorenHeidelbach/rustymotif [INFO] finished tweaking git repo https://github.com/SorenHeidelbach/rustymotif [INFO] tweaked toml for git repo https://github.com/SorenHeidelbach/rustymotif written to /workspace/builds/worker-2-tc1/source/Cargo.toml [INFO] crate git repo https://github.com/SorenHeidelbach/rustymotif 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" "+414482f6a0d4e7290f614300581a0b55442552a3" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Updating crates.io index [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded editdistancek v1.0.2 [INFO] [stderr] Downloaded newtype_derive v0.1.6 [INFO] [stderr] Downloaded bio-types v1.0.4 [INFO] [stderr] Downloaded triple_accel v0.4.0 [INFO] [stderr] Downloaded derive-new v0.6.0 [INFO] [stderr] Downloaded seq_io v0.3.3 [INFO] [stderr] Downloaded statrs v0.17.1 [INFO] [stderr] Downloaded ndarray v0.16.1 [INFO] [stderr] Downloaded itertools-num v0.1.3 [INFO] [stderr] Downloaded bio v2.0.3 [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:eea15d5475069c3ef791f10c2c6b5af2ee421ef2da1e680ecce1cba46243983b" "/opt/rustwide/cargo-home/bin/cargo" "+414482f6a0d4e7290f614300581a0b55442552a3" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] a7dd6072260e0f55407427b7fad789de551ebd51d1560cf29c33d9a5dc041d77 [INFO] running `Command { std: "docker" "start" "-a" "a7dd6072260e0f55407427b7fad789de551ebd51d1560cf29c33d9a5dc041d77", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "a7dd6072260e0f55407427b7fad789de551ebd51d1560cf29c33d9a5dc041d77", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "a7dd6072260e0f55407427b7fad789de551ebd51d1560cf29c33d9a5dc041d77", kill_on_drop: false }` [INFO] [stdout] a7dd6072260e0f55407427b7fad789de551ebd51d1560cf29c33d9a5dc041d77 [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:eea15d5475069c3ef791f10c2c6b5af2ee421ef2da1e680ecce1cba46243983b" "/opt/rustwide/cargo-home/bin/cargo" "+414482f6a0d4e7290f614300581a0b55442552a3" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] dd297199df5b610d6b3384bb8ae74663eb1f462e2bd377da5f9e256f546b07d0 [INFO] running `Command { std: "docker" "start" "-a" "dd297199df5b610d6b3384bb8ae74663eb1f462e2bd377da5f9e256f546b07d0", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro2 v1.0.93 [INFO] [stderr] Compiling unicode-ident v1.0.14 [INFO] [stderr] Compiling autocfg v1.4.0 [INFO] [stderr] Compiling libm v0.2.11 [INFO] [stderr] Compiling libc v0.2.169 [INFO] [stderr] Compiling memchr v2.7.4 [INFO] [stderr] Compiling byteorder v1.5.0 [INFO] [stderr] Compiling serde v1.0.217 [INFO] [stderr] Compiling paste v1.0.15 [INFO] [stderr] Compiling regex-syntax v0.8.5 [INFO] [stderr] Compiling bytemuck v1.21.0 [INFO] [stderr] Compiling rustversion v1.0.19 [INFO] [stderr] Compiling num-traits v0.2.19 [INFO] [stderr] Compiling matrixmultiply v0.3.9 [INFO] [stderr] Compiling safe_arch v0.7.4 [INFO] [stderr] Compiling utf8parse v0.2.2 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] 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statrs v0.17.1 [INFO] [stderr] Compiling bio v2.0.3 [INFO] [stderr] Compiling rustymotif v0.1.6 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused imports: `SerializeStruct` and `Serialize` [INFO] [stdout] --> src/lib/motif.rs:3:18 [INFO] [stdout] | [INFO] [stdout] 3 | use serde::ser::{Serialize, Serializer, SerializeStruct}; [INFO] [stdout] | ^^^^^^^^^ ^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `debug`, `info`, and `warn` [INFO] [stdout] --> src/lib/pileup.rs:7:11 [INFO] [stdout] | [INFO] [stdout] 7 | use log::{debug, info, warn}; [INFO] [stdout] | ^^^^^ ^^^^ ^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variant `verbose` should have an upper camel case name [INFO] [stdout] --> src/bin/rustymotif/cli.rs:81:5 [INFO] [stdout] | [INFO] [stdout] 81 | verbose, [INFO] [stdout] | ^^^^^^^ help: convert the identifier to upper camel case (notice the capitalization): `Verbose` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(non_camel_case_types)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variant `normal` should have an upper camel case name [INFO] [stdout] --> src/bin/rustymotif/cli.rs:82:5 [INFO] [stdout] | [INFO] [stdout] 82 | normal, [INFO] [stdout] | ^^^^^^ help: convert the identifier to upper camel case: `Normal` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variant `silent` should have an upper camel case name [INFO] [stdout] --> src/bin/rustymotif/cli.rs:83:5 [INFO] [stdout] | [INFO] [stdout] 83 | silent, [INFO] [stdout] | ^^^^^^ help: convert the identifier to upper camel case (notice the capitalization): `Silent` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `crate::sequence::MethylationThresholds` [INFO] [stdout] --> src/bin/rustymotif/data.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use crate::sequence::MethylationThresholds; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `crate::sequence::Contig` [INFO] [stdout] --> src/bin/rustymotif/fasta_reader.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use crate::sequence::Contig; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `crate::sequence::MethylationThresholds` [INFO] [stdout] --> src/bin/rustymotif/fasta_reader.rs:2:5 [INFO] [stdout] | [INFO] [stdout] 2 | use crate::sequence::MethylationThresholds; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bail` [INFO] [stdout] --> src/bin/rustymotif/motif_discovery.rs:2:14 [INFO] [stdout] | [INFO] [stdout] 2 | use anyhow::{bail, Result}; [INFO] [stdout] | ^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bio::bio_types::annot::contig` [INFO] [stdout] --> src/bin/rustymotif/motif_discovery.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use bio::bio_types::annot::contig; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `motif::MotifLike`, `motif`, and `strand::Strand` [INFO] [stdout] --> src/bin/rustymotif/motif_discovery.rs:6:13 [INFO] [stdout] | [INFO] [stdout] 6 | use utils::{motif, motif::MotifLike, pileup, strand::Strand}; [INFO] [stdout] | ^^^^^ ^^^^^^^^^^^^^^^^ ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `collections::HashSet` and `hash::Hash` [INFO] [stdout] --> src/bin/rustymotif/search.rs:1:11 [INFO] [stdout] | [INFO] [stdout] 1 | use std::{collections::HashSet, hash::Hash}; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ ^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bio::bio_types::annot::contig` [INFO] [stdout] --> src/bin/rustymotif/search.rs:9:5 [INFO] [stdout] | [INFO] [stdout] 9 | use bio::bio_types::annot::contig; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `ordered_float::OrderedFloat` [INFO] [stdout] --> src/bin/rustymotif/search.rs:12:5 [INFO] [stdout] | [INFO] [stdout] 12 | use ordered_float::OrderedFloat; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `algo::min_spanning_tree` [INFO] [stdout] --> src/bin/rustymotif/search.rs:14:5 [INFO] [stdout] | [INFO] [stdout] 14 | algo::min_spanning_tree, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `pileup` [INFO] [stdout] --> src/bin/rustymotif/search.rs:20:80 [INFO] [stdout] | [INFO] [stdout] 20 | iupac::IupacBase, modtype::ModType, motif, motif::Motif, motif::MotifLike, pileup, [INFO] [stdout] | ^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Deserialize` [INFO] [stdout] --> src/bin/rustymotif/search.rs:23:13 [INFO] [stdout] | [INFO] [stdout] 23 | use serde::{Deserialize, Serialize}; [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `anyhow::anyhow` [INFO] [stdout] --> src/bin/rustymotif/sequence.rs:6:5 [INFO] [stdout] | [INFO] [stdout] 6 | use anyhow::anyhow; [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function `new` is never used [INFO] [stdout] --> src/bin/rustymotif/model.rs:10:12 [INFO] [stdout] | [INFO] [stdout] 8 | impl BetaBernoulliModel { [INFO] [stdout] | ----------------------- associated function in this implementation [INFO] [stdout] 9 | /// Create a new Beta-Bernoulli model with alpha=1.0, beta=1.0 [INFO] [stdout] 10 | pub fn new() -> Self { [INFO] [stdout] | ^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: methods `check_node` and `neighbors` are never used [INFO] [stdout] --> src/bin/rustymotif/search.rs:421:12 [INFO] [stdout] | [INFO] [stdout] 395 | impl MotifGraph { [INFO] [stdout] | --------------- methods in this implementation [INFO] [stdout] ... [INFO] [stdout] 421 | pub fn check_node(&self, motif: &motif::Motif) -> bool { [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] ... [INFO] [stdout] 458 | pub fn neighbors(&self, motif: &motif::Motif) -> Option> { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: methods `score_log_odds_ratio` and `score_log_odds_ratio_z_score` are never used [INFO] [stdout] --> src/bin/rustymotif/search.rs:493:8 [INFO] [stdout] | [INFO] [stdout] 488 | impl ScoreCalculator { [INFO] [stdout] | -------------------- methods in this implementation [INFO] [stdout] ... [INFO] [stdout] 493 | fn score_log_odds_ratio( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] ... [INFO] [stdout] 508 | fn score_log_odds_ratio_z_score( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: methods `priority_log_odds_ratio` and `priority_log_odds_ratio_z_score` are never used [INFO] [stdout] --> src/bin/rustymotif/search.rs:569:8 [INFO] [stdout] | [INFO] [stdout] 551 | impl PriorityCalculator { [INFO] [stdout] | ----------------------- methods in this implementation [INFO] [stdout] ... [INFO] [stdout] 569 | fn priority_log_odds_ratio( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] ... [INFO] [stdout] 583 | fn priority_log_odds_ratio_z_score( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `log_odds_ratio` is never used [INFO] [stdout] --> src/bin/rustymotif/search.rs:598:4 [INFO] [stdout] | [INFO] [stdout] 598 | fn log_odds_ratio(p1: f64, p2: f64, q1: f64, q2: f64, psudo_count: f64) -> f64 { [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `log_odds_ratio_z_score` is never used [INFO] [stdout] --> src/bin/rustymotif/search.rs:604:4 [INFO] [stdout] | [INFO] [stdout] 604 | fn log_odds_ratio_z_score(p1: f64, p2: f64, q1: f64, q2: f64, psudo_count: f64) -> f64 { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function `default` is never used [INFO] [stdout] --> src/bin/rustymotif/sequence.rs:32:12 [INFO] [stdout] | [INFO] [stdout] 27 | impl MethylationThresholds { [INFO] [stdout] | -------------------------- associated function in this implementation [INFO] [stdout] ... [INFO] [stdout] 32 | pub fn default() -> Self { [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: method `length` is never used [INFO] [stdout] --> src/bin/rustymotif/sequence.rs:334:12 [INFO] [stdout] | [INFO] [stdout] 328 | impl PSSM { [INFO] [stdout] | --------- method in this implementation [INFO] [stdout] ... [INFO] [stdout] 334 | pub fn length(&self) -> usize { [INFO] [stdout] | ^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 1m 44s [INFO] running `Command { std: "docker" "inspect" "dd297199df5b610d6b3384bb8ae74663eb1f462e2bd377da5f9e256f546b07d0", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "dd297199df5b610d6b3384bb8ae74663eb1f462e2bd377da5f9e256f546b07d0", kill_on_drop: false }` [INFO] [stdout] dd297199df5b610d6b3384bb8ae74663eb1f462e2bd377da5f9e256f546b07d0 [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:eea15d5475069c3ef791f10c2c6b5af2ee421ef2da1e680ecce1cba46243983b" "/opt/rustwide/cargo-home/bin/cargo" "+414482f6a0d4e7290f614300581a0b55442552a3" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 91a01773a336df0817387d7d1655aaf213b34adec9dabe05abca8d29b486c633 [INFO] running `Command { std: "docker" "start" "-a" "91a01773a336df0817387d7d1655aaf213b34adec9dabe05abca8d29b486c633", kill_on_drop: false }` [INFO] [stderr] Compiling rustymotif v0.1.6 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused imports: `SerializeStruct` and `Serialize` [INFO] [stdout] --> src/lib/motif.rs:3:18 [INFO] [stdout] | [INFO] [stdout] 3 | use serde::ser::{Serialize, Serializer, SerializeStruct}; [INFO] [stdout] | ^^^^^^^^^ ^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `debug`, `info`, and `warn` [INFO] [stdout] --> src/lib/pileup.rs:7:11 [INFO] [stdout] | [INFO] [stdout] 7 | use log::{debug, info, warn}; [INFO] [stdout] | ^^^^^ ^^^^ ^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `SerializeStruct` and `Serialize` [INFO] [stdout] --> src/lib/motif.rs:3:18 [INFO] [stdout] | [INFO] [stdout] 3 | use serde::ser::{Serialize, Serializer, SerializeStruct}; [INFO] [stdout] | ^^^^^^^^^ ^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `debug`, `info`, and `warn` [INFO] [stdout] --> src/lib/pileup.rs:7:11 [INFO] [stdout] | [INFO] [stdout] 7 | use log::{debug, info, warn}; [INFO] [stdout] | ^^^^^ ^^^^ ^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variant `verbose` should have an upper camel case name [INFO] [stdout] --> src/bin/rustymotif/cli.rs:81:5 [INFO] [stdout] | [INFO] [stdout] 81 | verbose, [INFO] [stdout] | ^^^^^^^ help: convert the identifier to upper camel case (notice the capitalization): `Verbose` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(non_camel_case_types)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variant `normal` should have an upper camel case name [INFO] [stdout] --> src/bin/rustymotif/cli.rs:82:5 [INFO] [stdout] | [INFO] [stdout] 82 | normal, [INFO] [stdout] | ^^^^^^ help: convert the identifier to upper camel case: `Normal` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variant `silent` should have an upper camel case name [INFO] [stdout] --> src/bin/rustymotif/cli.rs:83:5 [INFO] [stdout] | [INFO] [stdout] 83 | silent, [INFO] [stdout] | ^^^^^^ help: convert the identifier to upper camel case (notice the capitalization): `Silent` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `crate::sequence::Contig` [INFO] [stdout] --> src/bin/rustymotif/fasta_reader.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use crate::sequence::Contig; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `crate::sequence::MethylationThresholds` [INFO] [stdout] --> src/bin/rustymotif/fasta_reader.rs:2:5 [INFO] [stdout] | [INFO] [stdout] 2 | use crate::sequence::MethylationThresholds; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bail` [INFO] [stdout] --> src/bin/rustymotif/motif_discovery.rs:2:14 [INFO] [stdout] | [INFO] [stdout] 2 | use anyhow::{bail, Result}; [INFO] [stdout] | ^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bio::bio_types::annot::contig` [INFO] [stdout] --> src/bin/rustymotif/motif_discovery.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use bio::bio_types::annot::contig; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `motif::MotifLike`, `motif`, and `strand::Strand` [INFO] [stdout] --> src/bin/rustymotif/motif_discovery.rs:6:13 [INFO] [stdout] | [INFO] [stdout] 6 | use utils::{motif, motif::MotifLike, pileup, strand::Strand}; [INFO] [stdout] | ^^^^^ ^^^^^^^^^^^^^^^^ ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `collections::HashSet` and `hash::Hash` [INFO] [stdout] --> src/bin/rustymotif/search.rs:1:11 [INFO] [stdout] | [INFO] [stdout] 1 | use std::{collections::HashSet, hash::Hash}; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ ^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bio::bio_types::annot::contig` [INFO] [stdout] --> src/bin/rustymotif/search.rs:9:5 [INFO] [stdout] | [INFO] [stdout] 9 | use bio::bio_types::annot::contig; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `ordered_float::OrderedFloat` [INFO] [stdout] --> src/bin/rustymotif/search.rs:12:5 [INFO] [stdout] | [INFO] [stdout] 12 | use ordered_float::OrderedFloat; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `algo::min_spanning_tree` [INFO] [stdout] --> src/bin/rustymotif/search.rs:14:5 [INFO] [stdout] | [INFO] [stdout] 14 | algo::min_spanning_tree, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `pileup` [INFO] [stdout] --> src/bin/rustymotif/search.rs:20:80 [INFO] [stdout] | [INFO] [stdout] 20 | iupac::IupacBase, modtype::ModType, motif, motif::Motif, motif::MotifLike, pileup, [INFO] [stdout] | ^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Deserialize` [INFO] [stdout] --> src/bin/rustymotif/search.rs:23:13 [INFO] [stdout] | [INFO] [stdout] 23 | use serde::{Deserialize, Serialize}; [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `anyhow::anyhow` [INFO] [stdout] --> src/bin/rustymotif/sequence.rs:6:5 [INFO] [stdout] | [INFO] [stdout] 6 | use anyhow::anyhow; [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bio::bio_types::annot::contig` [INFO] [stdout] --> src/bin/rustymotif/sequence.rs:374:9 [INFO] [stdout] | [INFO] [stdout] 374 | use bio::bio_types::annot::contig; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function `new` is never used [INFO] [stdout] --> src/bin/rustymotif/model.rs:10:12 [INFO] [stdout] | [INFO] [stdout] 8 | impl BetaBernoulliModel { [INFO] [stdout] | ----------------------- associated function in this implementation [INFO] [stdout] 9 | /// Create a new Beta-Bernoulli model with alpha=1.0, beta=1.0 [INFO] [stdout] 10 | pub fn new() -> Self { [INFO] [stdout] | ^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: methods `check_node` and `neighbors` are never used [INFO] [stdout] --> src/bin/rustymotif/search.rs:421:12 [INFO] [stdout] | [INFO] [stdout] 395 | impl MotifGraph { [INFO] [stdout] | --------------- methods in this implementation [INFO] [stdout] ... [INFO] [stdout] 421 | pub fn check_node(&self, motif: &motif::Motif) -> bool { [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] ... [INFO] [stdout] 458 | pub fn neighbors(&self, motif: &motif::Motif) -> Option> { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: methods `score_log_odds_ratio` and `score_log_odds_ratio_z_score` are never used [INFO] [stdout] --> src/bin/rustymotif/search.rs:493:8 [INFO] [stdout] | [INFO] [stdout] 488 | impl ScoreCalculator { [INFO] [stdout] | -------------------- methods in this implementation [INFO] [stdout] ... [INFO] [stdout] 493 | fn score_log_odds_ratio( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] ... [INFO] [stdout] 508 | fn score_log_odds_ratio_z_score( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: methods `priority_log_odds_ratio` and `priority_log_odds_ratio_z_score` are never used [INFO] [stdout] --> src/bin/rustymotif/search.rs:569:8 [INFO] [stdout] | [INFO] [stdout] 551 | impl PriorityCalculator { [INFO] [stdout] | ----------------------- methods in this implementation [INFO] [stdout] ... [INFO] [stdout] 569 | fn priority_log_odds_ratio( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] ... [INFO] [stdout] 583 | fn priority_log_odds_ratio_z_score( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `log_odds_ratio` is never used [INFO] [stdout] --> src/bin/rustymotif/search.rs:598:4 [INFO] [stdout] | [INFO] [stdout] 598 | fn log_odds_ratio(p1: f64, p2: f64, q1: f64, q2: f64, psudo_count: f64) -> f64 { [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `log_odds_ratio_z_score` is never used [INFO] [stdout] --> src/bin/rustymotif/search.rs:604:4 [INFO] [stdout] | [INFO] [stdout] 604 | fn log_odds_ratio_z_score(p1: f64, p2: f64, q1: f64, q2: f64, psudo_count: f64) -> f64 { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: method `length` is never used [INFO] [stdout] --> src/bin/rustymotif/sequence.rs:334:12 [INFO] [stdout] | [INFO] [stdout] 328 | impl PSSM { [INFO] [stdout] | --------- method in this implementation [INFO] [stdout] ... [INFO] [stdout] 334 | pub fn length(&self) -> usize { [INFO] [stdout] | ^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 2.69s [INFO] running `Command { std: "docker" "inspect" "91a01773a336df0817387d7d1655aaf213b34adec9dabe05abca8d29b486c633", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "91a01773a336df0817387d7d1655aaf213b34adec9dabe05abca8d29b486c633", kill_on_drop: false }` [INFO] [stdout] 91a01773a336df0817387d7d1655aaf213b34adec9dabe05abca8d29b486c633 [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:eea15d5475069c3ef791f10c2c6b5af2ee421ef2da1e680ecce1cba46243983b" "/opt/rustwide/cargo-home/bin/cargo" "+414482f6a0d4e7290f614300581a0b55442552a3" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] 4116e30e6f3eb7ce1db838e4a6f748ca930498a744c2efc3cdfaab1d97cb1b2c [INFO] running `Command { std: "docker" "start" "-a" "4116e30e6f3eb7ce1db838e4a6f748ca930498a744c2efc3cdfaab1d97cb1b2c", kill_on_drop: false }` [INFO] [stderr] warning: unused imports: `SerializeStruct` and `Serialize` [INFO] [stderr] --> src/lib/motif.rs:3:18 [INFO] [stderr] | [INFO] [stderr] 3 | use serde::ser::{Serialize, Serializer, SerializeStruct}; [INFO] [stderr] | ^^^^^^^^^ ^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused imports: `debug`, `info`, and `warn` [INFO] [stderr] --> src/lib/pileup.rs:7:11 [INFO] [stderr] | [INFO] [stderr] 7 | use log::{debug, info, warn}; [INFO] [stderr] | ^^^^^ ^^^^ ^^^^ [INFO] [stderr] [INFO] [stderr] warning: `rustymotif` (lib) generated 2 warnings (run `cargo fix --lib -p rustymotif` to apply 2 suggestions) [INFO] [stderr] warning: `rustymotif` (lib test) generated 2 warnings (2 duplicates) [INFO] [stderr] warning: variant `verbose` should have an upper camel case name [INFO] [stderr] --> src/bin/rustymotif/cli.rs:81:5 [INFO] [stderr] | [INFO] [stderr] 81 | verbose, [INFO] [stderr] | ^^^^^^^ help: convert the identifier to upper camel case (notice the capitalization): `Verbose` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(non_camel_case_types)]` on by default [INFO] [stderr] [INFO] [stderr] warning: variant `normal` should have an upper camel case name [INFO] [stderr] --> src/bin/rustymotif/cli.rs:82:5 [INFO] [stderr] | [INFO] [stderr] 82 | normal, [INFO] [stderr] | ^^^^^^ help: convert the identifier to upper camel case: `Normal` [INFO] [stderr] [INFO] [stderr] warning: variant `silent` should have an upper camel case name [INFO] [stderr] --> src/bin/rustymotif/cli.rs:83:5 [INFO] [stderr] | [INFO] [stderr] 83 | silent, [INFO] [stderr] | ^^^^^^ help: convert the identifier to upper camel case (notice the capitalization): `Silent` [INFO] [stderr] [INFO] [stderr] warning: unused import: `crate::sequence::Contig` [INFO] [stderr] --> src/bin/rustymotif/fasta_reader.rs:1:5 [INFO] [stderr] | [INFO] [stderr] 1 | use crate::sequence::Contig; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused import: `crate::sequence::MethylationThresholds` [INFO] [stderr] --> src/bin/rustymotif/fasta_reader.rs:2:5 [INFO] [stderr] | [INFO] [stderr] 2 | use crate::sequence::MethylationThresholds; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `bail` [INFO] [stderr] --> src/bin/rustymotif/motif_discovery.rs:2:14 [INFO] [stderr] | [INFO] [stderr] 2 | use anyhow::{bail, Result}; [INFO] [stderr] | ^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `bio::bio_types::annot::contig` [INFO] [stderr] --> src/bin/rustymotif/motif_discovery.rs:3:5 [INFO] [stderr] | [INFO] [stderr] 3 | use bio::bio_types::annot::contig; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused imports: `motif::MotifLike`, `motif`, and `strand::Strand` [INFO] [stderr] --> src/bin/rustymotif/motif_discovery.rs:6:13 [INFO] [stderr] | [INFO] [stderr] 6 | use utils::{motif, motif::MotifLike, pileup, strand::Strand}; [INFO] [stderr] | ^^^^^ ^^^^^^^^^^^^^^^^ ^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused imports: `collections::HashSet` and `hash::Hash` [INFO] [stderr] --> src/bin/rustymotif/search.rs:1:11 [INFO] [stderr] | [INFO] [stderr] 1 | use std::{collections::HashSet, hash::Hash}; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^ ^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `bio::bio_types::annot::contig` [INFO] [stderr] --> src/bin/rustymotif/search.rs:9:5 [INFO] [stderr] | [INFO] [stderr] 9 | use bio::bio_types::annot::contig; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `ordered_float::OrderedFloat` [INFO] [stderr] --> src/bin/rustymotif/search.rs:12:5 [INFO] [stderr] | [INFO] [stderr] 12 | use ordered_float::OrderedFloat; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `algo::min_spanning_tree` [INFO] [stderr] --> src/bin/rustymotif/search.rs:14:5 [INFO] [stderr] | [INFO] [stderr] 14 | algo::min_spanning_tree, [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `pileup` [INFO] [stderr] --> src/bin/rustymotif/search.rs:20:80 [INFO] [stderr] | [INFO] [stderr] 20 | iupac::IupacBase, modtype::ModType, motif, motif::Motif, motif::MotifLike, pileup, [INFO] [stderr] | ^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `Deserialize` [INFO] [stderr] --> src/bin/rustymotif/search.rs:23:13 [INFO] [stderr] | [INFO] [stderr] 23 | use serde::{Deserialize, Serialize}; [INFO] [stderr] | ^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `anyhow::anyhow` [INFO] [stderr] --> src/bin/rustymotif/sequence.rs:6:5 [INFO] [stderr] | [INFO] [stderr] 6 | use anyhow::anyhow; [INFO] [stderr] | ^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `bio::bio_types::annot::contig` [INFO] [stderr] --> src/bin/rustymotif/sequence.rs:374:9 [INFO] [stderr] | [INFO] [stderr] 374 | use bio::bio_types::annot::contig; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: associated function `new` is never used [INFO] [stderr] --> src/bin/rustymotif/model.rs:10:12 [INFO] [stderr] | [INFO] [stderr] 8 | impl BetaBernoulliModel { [INFO] [stderr] | ----------------------- associated function in this implementation [INFO] [stderr] 9 | /// Create a new Beta-Bernoulli model with alpha=1.0, beta=1.0 [INFO] [stderr] 10 | pub fn new() -> Self { [INFO] [stderr] | ^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(dead_code)]` on by default [INFO] [stderr] [INFO] [stderr] warning: methods `check_node` and `neighbors` are never used [INFO] [stderr] --> src/bin/rustymotif/search.rs:421:12 [INFO] [stderr] | [INFO] [stderr] 395 | impl MotifGraph { [INFO] [stderr] | --------------- methods in this implementation [INFO] [stderr] ... [INFO] [stderr] 421 | pub fn check_node(&self, motif: &motif::Motif) -> bool { [INFO] [stderr] | ^^^^^^^^^^ [INFO] [stderr] ... [INFO] [stderr] 458 | pub fn neighbors(&self, motif: &motif::Motif) -> Option> { [INFO] [stderr] | ^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: methods `score_log_odds_ratio` and `score_log_odds_ratio_z_score` are never used [INFO] [stderr] --> src/bin/rustymotif/search.rs:493:8 [INFO] [stderr] | [INFO] [stderr] 488 | impl ScoreCalculator { [INFO] [stderr] | -------------------- methods in this implementation [INFO] [stderr] ... [INFO] [stderr] 493 | fn score_log_odds_ratio( [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] ... [INFO] [stderr] 508 | fn score_log_odds_ratio_z_score( [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: methods `priority_log_odds_ratio` and `priority_log_odds_ratio_z_score` are never used [INFO] [stderr] --> src/bin/rustymotif/search.rs:569:8 [INFO] [stderr] | [INFO] [stderr] 551 | impl PriorityCalculator { [INFO] [stderr] | ----------------------- methods in this implementation [INFO] [stderr] ... [INFO] [stderr] 569 | fn priority_log_odds_ratio( [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] ... [INFO] [stderr] 583 | fn priority_log_odds_ratio_z_score( [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: function `log_odds_ratio` is never used [INFO] [stderr] --> src/bin/rustymotif/search.rs:598:4 [INFO] [stderr] | [INFO] [stderr] 598 | fn log_odds_ratio(p1: f64, p2: f64, q1: f64, q2: f64, psudo_count: f64) -> f64 { [INFO] [stderr] | ^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: function `log_odds_ratio_z_score` is never used [INFO] [stderr] --> src/bin/rustymotif/search.rs:604:4 [INFO] [stderr] | [INFO] [stderr] 604 | fn log_odds_ratio_z_score(p1: f64, p2: f64, q1: f64, q2: f64, psudo_count: f64) -> f64 { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: method `length` is never used [INFO] [stderr] --> src/bin/rustymotif/sequence.rs:334:12 [INFO] [stderr] | [INFO] [stderr] 328 | impl PSSM { [INFO] [stderr] | --------- method in this implementation [INFO] [stderr] ... [INFO] [stderr] 334 | pub fn length(&self) -> usize { [INFO] [stderr] | ^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: `rustymotif` (bin "rustymotif" test) generated 23 warnings (run `cargo fix --bin "rustymotif" --tests` to apply 13 suggestions) [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.15s [INFO] [stderr] Running unittests src/lib/lib.rs (/opt/rustwide/target/debug/deps/utils-8255be32bc4e30f3) [INFO] [stdout] [INFO] [stdout] running 17 tests [INFO] [stdout] test iupac::tests::test_complement ... ok [INFO] [stdout] test iupac::tests::test_to_regex ... ok [INFO] [stdout] test modtype::tests::test_display ... ok [INFO] [stdout] test modtype::tests::test_from_str ... ok [INFO] [stdout] test modtype::tests::test_from_str_error ... ok [INFO] [stdout] test modtype::tests::test_to_pileup_code ... ok [INFO] [stdout] test motif::tests::test_motif_grow_motif_at ... ok [INFO] [stdout] test motif::tests::test_motif_pair_new ... ok [INFO] [stdout] test motif::tests::test_reverse_complement ... ok [INFO] [stdout] test motif::tests::test_new ... ok [INFO] [stdout] test pileup::tests::test_new_pileup_chunk ... ok [INFO] [stdout] test pileup::tests::test_n_chunks ... ok [INFO] [stdout] test pileup::tests::test_new_pileup_record ... ok [INFO] [stdout] test pileup::tests::test_with_tempfile ... ok [INFO] [stdout] test pileup::tests::test_low_coverage_filtering ... ok [INFO] [stdout] test pileup::tests::test_parse_and_validate_record ... ok [INFO] [stderr] Running unittests src/bin/rustymotif/main.rs (/opt/rustwide/target/debug/deps/rustymotif-b02965546b17f3b7) [INFO] [stdout] test pileup::tests::test_new_pileup_chunk_reader ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 17 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.03s [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] running 12 tests [INFO] [stdout] test sequence::tests::test_contig_add_records ... ok [INFO] [stdout] test sequence::tests::test_contig_add_record ... ok [INFO] [stdout] test sequence::tests::test_contig_extract_subsequences ... ok [INFO] [stdout] test sequence::tests::test_contig_populate_methylation_levels ... ok [INFO] [stdout] test sequence::tests::test_equal_length_dna_set_empty ... ok [INFO] [stdout] test sequence::tests::test_equal_length_dna_set_pssm ... ok [INFO] [stdout] test sequence::tests::test_pssm_kl_divergence ... ok [INFO] [stdout] test sequence::tests::test_equal_length_dna_set_get_motif_matching_sequences ... ok [INFO] [stdout] test sequence::tests::test_equal_length_dna_set_reverse_complement ... ok [INFO] [stdout] test sequence::tests::test_contig_find_motif_indices ... ok [INFO] [stdout] test data::tests::test_genome_workspace_builder ... FAILED [INFO] [stdout] test sequence::tests::test_equal_length_dna_set_new ... ok [INFO] [stdout] [INFO] [stdout] failures: [INFO] [stdout] [INFO] [stdout] ---- data::tests::test_genome_workspace_builder stdout ---- [INFO] [stdout] [INFO] [stdout] thread 'data::tests::test_genome_workspace_builder' panicked at src/bin/rustymotif/data.rs:107:9: [INFO] [stdout] assertion `left == right` failed [INFO] [stdout] left: [3, 2] [INFO] [stdout] right: [2, 3] [INFO] [stdout] stack backtrace: [INFO] [stdout] 0: 0x6454e5807cd2 - std::backtrace_rs::backtrace::libunwind::trace::h2a54ddf40adf8cf8 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/../../backtrace/src/backtrace/libunwind.rs:117:9 [INFO] [stdout] 1: 0x6454e5807cd2 - std::backtrace_rs::backtrace::trace_unsynchronized::h332dec2b3594a10b [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/../../backtrace/src/backtrace/mod.rs:66:14 [INFO] [stdout] 2: 0x6454e5807cd2 - std::sys::backtrace::_print_fmt::hcb3dee91dccac105 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/sys/backtrace.rs:66:9 [INFO] [stdout] 3: 0x6454e5807cd2 - ::fmt::h2f02338d4ae6d8b0 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/sys/backtrace.rs:39:26 [INFO] [stdout] 4: 0x6454e582ce93 - core::fmt::rt::Argument::fmt::h8705d664b1839d6c [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/core/src/fmt/rt.rs:173:76 [INFO] [stdout] 5: 0x6454e582ce93 - core::fmt::write::h5e77c22335cabc7f [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/core/src/fmt/mod.rs:1446:25 [INFO] [stdout] 6: 0x6454e58049e3 - std::io::default_write_fmt::h5c16109ce8878b06 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/io/mod.rs:639:11 [INFO] [stdout] 7: 0x6454e58049e3 - std::io::Write::write_fmt::h183cd11c08a12e04 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/io/mod.rs:1914:13 [INFO] [stdout] 8: 0x6454e5807b22 - std::sys::backtrace::BacktraceLock::print::hb22254026b13323e [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/sys/backtrace.rs:42:9 [INFO] [stdout] 9: 0x6454e580925c - std::panicking::default_hook::{{closure}}::h15ac4e3ee7801be5 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/panicking.rs:300:22 [INFO] [stdout] 10: 0x6454e58090b2 - std::panicking::default_hook::h15db2a3343942a16 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/panicking.rs:324:9 [INFO] [stdout] 11: 0x6454e553e624 - as core::ops::function::Fn>::call::ha02114eecd5b8f69 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/alloc/src/boxed.rs:1980:9 [INFO] [stdout] 12: 0x6454e553e624 - test::test_main_with_exit_callback::{{closure}}::hfb76c9b760818eb2 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/test/src/lib.rs:145:21 [INFO] [stdout] 13: 0x6454e5809d53 - as core::ops::function::Fn>::call::h325134fa51136753 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/alloc/src/boxed.rs:1980:9 [INFO] [stdout] 14: 0x6454e5809d53 - std::panicking::rust_panic_with_hook::h67f3fa85499b6cf9 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/panicking.rs:841:13 [INFO] [stdout] 15: 0x6454e5809a0a - std::panicking::begin_panic_handler::{{closure}}::h40a30e994b26720e [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/panicking.rs:706:13 [INFO] [stdout] 16: 0x6454e58081d9 - std::sys::backtrace::__rust_end_short_backtrace::hb5bcb2f6ea295c8b [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/sys/backtrace.rs:168:18 [INFO] [stdout] 17: 0x6454e580969d - __rustc[bf3627c2b8b7eae9]::rust_begin_unwind [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/panicking.rs:697:5 [INFO] [stdout] 18: 0x6454e582b240 - core::panicking::panic_fmt::h20722ae9d0312a90 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/core/src/panicking.rs:75:14 [INFO] [stdout] 19: 0x6454e582b593 - core::panicking::assert_failed_inner::h631f6be8bf4a7da9 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/core/src/panicking.rs:432:17 [INFO] [stdout] 20: 0x6454e54ef1c9 - core::panicking::assert_failed::h94d503a4f0722f44 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/core/src/panicking.rs:387:5 [INFO] [stdout] 21: 0x6454e550486b - rustymotif::data::tests::test_genome_workspace_builder::h16fb83f30696a7c3 [INFO] [stdout] at /opt/rustwide/workdir/src/bin/rustymotif/data.rs:107:9 [INFO] [stdout] 22: 0x6454e5503d87 - rustymotif::data::tests::test_genome_workspace_builder::{{closure}}::h14626aad595d098c [INFO] [stdout] at /opt/rustwide/workdir/src/bin/rustymotif/data.rs:52:39 [INFO] [stdout] 23: 0x6454e54ed766 - core::ops::function::FnOnce::call_once::hcb7e824bc9554a9a [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/core/src/ops/function.rs:250:5 [INFO] [stdout] 24: 0x6454e5543ddb - core::ops::function::FnOnce::call_once::h57f6f31c364c320b [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/core/src/ops/function.rs:250:5 [INFO] [stdout] 25: 0x6454e5543ddb - test::__rust_begin_short_backtrace::h517520f4c2bfc013 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/test/src/lib.rs:648:18 [INFO] [stdout] 26: 0x6454e5543032 - test::run_test_in_process::{{closure}}::h0914ac5f2719bf90 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/test/src/lib.rs:671:60 [INFO] [stdout] 27: 0x6454e5543032 - as core::ops::function::FnOnce<()>>::call_once::h6fe627a8560ee122 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/core/src/panic/unwind_safe.rs:272:9 [INFO] [stdout] 28: 0x6454e5543032 - std::panicking::try::do_call::h8e4a522b2d07b5d9 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/panicking.rs:589:40 [INFO] [stdout] 29: 0x6454e5543032 - std::panicking::try::h254b443d279d1f8a [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/panicking.rs:552:19 [INFO] [stdout] 30: 0x6454e5543032 - std::panic::catch_unwind::he39107e495b94aed [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/panic.rs:359:14 [INFO] [stdout] 31: 0x6454e5543032 - test::run_test_in_process::hb9053e7102e6de40 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/test/src/lib.rs:671:27 [INFO] [stdout] 32: 0x6454e5543032 - test::run_test::{{closure}}::hed53f683e9967fc9 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/test/src/lib.rs:592:43 [INFO] [stdout] 33: 0x6454e5506424 - test::run_test::{{closure}}::h1b1395a97621c24c [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/test/src/lib.rs:622:41 [INFO] [stdout] 34: 0x6454e5506424 - std::sys::backtrace::__rust_begin_short_backtrace::hd15d7342920b94e4 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/sys/backtrace.rs:152:18 [INFO] [stdout] 35: 0x6454e5509e4a - std::thread::Builder::spawn_unchecked_::{{closure}}::{{closure}}::hf7d3403d2a997ad4 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/thread/mod.rs:559:17 [INFO] [stdout] 36: 0x6454e5509e4a - as core::ops::function::FnOnce<()>>::call_once::h804cb151403aed57 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/core/src/panic/unwind_safe.rs:272:9 [INFO] [stdout] 37: 0x6454e5509e4a - std::panicking::try::do_call::h83a3328114f83651 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/panicking.rs:589:40 [INFO] [stdout] 38: 0x6454e5509e4a - std::panicking::try::h5371451a86d476d0 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/panicking.rs:552:19 [INFO] [stdout] 39: 0x6454e5509e4a - std::panic::catch_unwind::h2d1b89e7535ca74a [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/panic.rs:359:14 [INFO] [stdout] 40: 0x6454e5509e4a - std::thread::Builder::spawn_unchecked_::{{closure}}::h169c242c7f876b92 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/thread/mod.rs:557:30 [INFO] [stdout] 41: 0x6454e5509e4a - core::ops::function::FnOnce::call_once{{vtable.shim}}::h4115e0f997976371 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/core/src/ops/function.rs:250:5 [INFO] [stdout] 42: 0x6454e580b85b - as core::ops::function::FnOnce>::call_once::hbc3fa83432d7fd73 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/alloc/src/boxed.rs:1966:9 [INFO] [stdout] 43: 0x6454e580b85b - as core::ops::function::FnOnce>::call_once::heba5519d10f2c030 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/alloc/src/boxed.rs:1966:9 [INFO] [stdout] 44: 0x6454e580b85b - std::sys::pal::unix::thread::Thread::new::thread_start::h211a36f354245501 [INFO] [stdout] at /rustc/414482f6a0d4e7290f614300581a0b55442552a3/library/std/src/sys/pal/unix/thread.rs:97:17 [INFO] [stdout] 45: 0x7b749d6adaa4 - [INFO] [stdout] 46: 0x7b749d73aa34 - clone [INFO] [stdout] 47: 0x0 - [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] failures: [INFO] [stdout] data::tests::test_genome_workspace_builder [INFO] [stdout] [INFO] [stdout] test result: FAILED. 11 passed; 1 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.12s [INFO] [stdout] [INFO] [stderr] error: test failed, to rerun pass `--bin rustymotif` [INFO] running `Command { std: "docker" "inspect" "4116e30e6f3eb7ce1db838e4a6f748ca930498a744c2efc3cdfaab1d97cb1b2c", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "4116e30e6f3eb7ce1db838e4a6f748ca930498a744c2efc3cdfaab1d97cb1b2c", kill_on_drop: false }` [INFO] [stdout] 4116e30e6f3eb7ce1db838e4a6f748ca930498a744c2efc3cdfaab1d97cb1b2c