[INFO] cloning repository https://github.com/bluenote-1577/haplotype_phaser [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/bluenote-1577/haplotype_phaser" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbluenote-1577%2Fhaplotype_phaser", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbluenote-1577%2Fhaplotype_phaser'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 8a09ca58a89926bdbb8e54be248b327ad7c0376d [INFO] building bluenote-1577/haplotype_phaser against try#615edd3ad1cf6871c977dc900317cb6c2070fd6b for pr-97334 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbluenote-1577%2Fhaplotype_phaser" "/workspace/builds/worker-11/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-11/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/bluenote-1577/haplotype_phaser on toolchain 615edd3ad1cf6871c977dc900317cb6c2070fd6b [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+615edd3ad1cf6871c977dc900317cb6c2070fd6b" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/bluenote-1577/haplotype_phaser [INFO] finished tweaking git repo https://github.com/bluenote-1577/haplotype_phaser [INFO] tweaked toml for git repo https://github.com/bluenote-1577/haplotype_phaser written to /workspace/builds/worker-11/source/Cargo.toml [INFO] crate git repo https://github.com/bluenote-1577/haplotype_phaser already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+615edd3ad1cf6871c977dc900317cb6c2070fd6b" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/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:ac0d0aa6ec8ed129e241004a6179c99fa0d2616f50ba759c5b60bd26d0fafa02" "/opt/rustwide/cargo-home/bin/cargo" "+615edd3ad1cf6871c977dc900317cb6c2070fd6b" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] af1959e3c2db47646022f0f4e1e75c604a4265310c1e8844824cb3840b8e31b0 [INFO] running `Command { std: "docker" "start" "-a" "af1959e3c2db47646022f0f4e1e75c604a4265310c1e8844824cb3840b8e31b0", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "af1959e3c2db47646022f0f4e1e75c604a4265310c1e8844824cb3840b8e31b0", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "af1959e3c2db47646022f0f4e1e75c604a4265310c1e8844824cb3840b8e31b0", kill_on_drop: false }` [INFO] [stdout] af1959e3c2db47646022f0f4e1e75c604a4265310c1e8844824cb3840b8e31b0 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/var/lib/crater-agent-workspace/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:ac0d0aa6ec8ed129e241004a6179c99fa0d2616f50ba759c5b60bd26d0fafa02" "/opt/rustwide/cargo-home/bin/cargo" "+615edd3ad1cf6871c977dc900317cb6c2070fd6b" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] 10686ad32ea4987398771ce5f36f801193b8e5e475d079535e8d39bf03f2fc9a [INFO] running `Command { std: "docker" "start" "-a" "10686ad32ea4987398771ce5f36f801193b8e5e475d079535e8d39bf03f2fc9a", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.74 [INFO] [stderr] Compiling autocfg v1.0.0 [INFO] [stderr] Compiling pkg-config v0.3.18 [INFO] [stderr] Compiling cfg-if v0.1.10 [INFO] [stderr] Compiling proc-macro2 v1.0.19 [INFO] [stderr] Compiling unicode-xid v0.2.1 [INFO] [stderr] Compiling syn v1.0.38 [INFO] [stderr] Compiling lazy_static v1.4.0 [INFO] [stderr] Compiling libm v0.2.1 [INFO] [stderr] Compiling version_check v0.9.2 [INFO] [stderr] Compiling getrandom v0.1.14 [INFO] [stderr] Compiling maybe-uninit v2.0.0 [INFO] [stderr] Compiling memchr v2.3.3 [INFO] [stderr] Compiling typenum v1.12.0 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling ppv-lite86 v0.2.9 [INFO] [stderr] Compiling quick-error v1.2.3 [INFO] [stderr] Compiling glob v0.3.0 [INFO] [stderr] Compiling tinyvec v0.3.4 [INFO] [stderr] Compiling matches v0.1.8 [INFO] [stderr] Compiling rayon-core v1.7.1 [INFO] [stderr] Compiling serde_derive v1.0.115 [INFO] [stderr] Compiling serde v1.0.115 [INFO] [stderr] Compiling scopeguard v1.1.0 [INFO] [stderr] Compiling bitflags v1.2.1 [INFO] [stderr] Compiling rawpointer v0.2.1 [INFO] [stderr] Compiling proc-macro-hack v0.5.18 [INFO] [stderr] Compiling byteorder v1.3.4 [INFO] [stderr] Compiling regex-syntax v0.6.18 [INFO] [stderr] Compiling percent-encoding v2.1.0 [INFO] [stderr] Compiling unicode-width v0.1.8 [INFO] [stderr] Compiling either v1.6.0 [INFO] [stderr] Compiling vec_map v0.8.2 [INFO] [stderr] Compiling ansi_term v0.11.0 [INFO] [stderr] Compiling strsim v0.8.0 [INFO] [stderr] Compiling ieee754 v0.2.6 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling linear-map v1.2.0 [INFO] [stderr] Compiling permute v0.1.0 [INFO] [stderr] Compiling thread_local v1.0.1 [INFO] [stderr] Compiling fs-utils v1.1.4 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Compiling unicode-bidi v0.3.4 [INFO] [stderr] Compiling unicode-normalization v0.1.13 [INFO] [stderr] Compiling matrixmultiply v0.2.3 [INFO] [stderr] Compiling num-traits v0.2.12 [INFO] [stderr] Compiling crossbeam-utils v0.7.2 [INFO] [stderr] Compiling memoffset v0.5.5 [INFO] [stderr] Compiling num-integer v0.1.43 [INFO] [stderr] Compiling crossbeam-epoch v0.8.2 [INFO] [stderr] Compiling num-complex v0.2.4 [INFO] [stderr] Compiling num-rational v0.2.4 [INFO] [stderr] Compiling rayon v1.3.1 [INFO] [stderr] Compiling standback v0.2.9 [INFO] [stderr] Compiling time v0.2.16 [INFO] [stderr] Compiling textwrap v0.11.0 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling aho-corasick v0.7.13 [INFO] [stderr] Compiling idna v0.2.0 [INFO] [stderr] Compiling quote v1.0.7 [INFO] [stderr] Compiling jobserver v0.1.21 [INFO] [stderr] Compiling num_cpus v1.13.0 [INFO] [stderr] Compiling atty v0.2.14 [INFO] [stderr] Compiling fxhash v0.2.1 [INFO] [stderr] Compiling clap v2.33.3 [INFO] [stderr] Compiling rand_core v0.5.1 [INFO] [stderr] Compiling cc v1.0.59 [INFO] [stderr] Compiling crossbeam-queue v0.2.3 [INFO] [stderr] Compiling generic-array v0.13.2 [INFO] [stderr] Compiling url v2.1.1 [INFO] [stderr] Compiling rand_chacha v0.2.2 [INFO] [stderr] Compiling rand_pcg v0.2.1 [INFO] [stderr] Compiling regex v1.3.9 [INFO] [stderr] Compiling crossbeam-deque v0.7.3 [INFO] [stderr] Compiling approx v0.3.2 [INFO] [stderr] Compiling rand v0.7.3 [INFO] [stderr] Compiling openssl-src v111.10.2+1.1.1g [INFO] [stderr] Compiling alga v0.9.3 [INFO] [stderr] Compiling libz-sys v1.1.0 [INFO] [stderr] Compiling openssl-sys v0.9.58 [INFO] [stderr] Compiling bzip2-sys v0.1.9+1.0.8 [INFO] [stderr] Compiling lzma-sys v0.1.16 [INFO] [stderr] Compiling curl-sys v0.4.36+curl-7.71.1 [INFO] [stderr] Compiling hts-sys v1.10.3 [INFO] [stderr] Compiling rand_distr v0.2.2 [INFO] [stderr] Compiling nalgebra v0.19.0 [INFO] [stderr] Compiling derive-new v0.5.8 [INFO] [stderr] Compiling thiserror-impl v1.0.20 [INFO] [stderr] Compiling time-macros-impl v0.1.1 [INFO] [stderr] Compiling time-macros v0.1.0 [INFO] [stderr] Compiling thiserror v1.0.20 [INFO] [stderr] Compiling bio-types v0.7.0 [INFO] [stderr] Compiling statrs v0.13.0 [INFO] [stderr] Compiling rust-htslib v0.32.0 [INFO] [stderr] Compiling flopp v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused macro definition: `debug` [INFO] [stdout] --> src/local_clustering.rs:11:14 [INFO] [stdout] | [INFO] [stdout] 11 | macro_rules! debug { [INFO] [stdout] | ^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_macros)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `block` [INFO] [stdout] --> src/file_reader.rs:134:13 [INFO] [stdout] | [INFO] [stdout] 134 | for (i, block) in blocks.iter().enumerate() { [INFO] [stdout] | ^^^^^ help: if this is intentional, prefix it with an underscore: `_block` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable `number_references` is assigned to, but never used [INFO] [stdout] --> src/file_reader.rs:262:13 [INFO] [stdout] | [INFO] [stdout] 262 | let mut number_references = 0; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: consider using `_number_references` instead [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `number_references` is never read [INFO] [stdout] --> src/file_reader.rs:265:13 [INFO] [stdout] | [INFO] [stdout] 265 | number_references = content.len(); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_assignments)]` on by default [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `dist` [INFO] [stdout] --> src/vcf_polishing.rs:716:13 [INFO] [stdout] | [INFO] [stdout] 716 | let dist = &part_size_distribution_sum[j]; [INFO] [stdout] | ^^^^ help: if this is intentional, prefix it with an underscore: `_dist` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `all_frags` [INFO] [stdout] --> src/vcf_polishing.rs:641:5 [INFO] [stdout] | [INFO] [stdout] 641 | all_frags: &'a Vec, [INFO] [stdout] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_all_frags` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `populate_clusters2_binom` [INFO] [stdout] --> src/local_clustering.rs:427:4 [INFO] [stdout] | [INFO] [stdout] 427 | fn populate_clusters2_binom( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `populate_clusters1` [INFO] [stdout] --> src/local_clustering.rs:525:4 [INFO] [stdout] | [INFO] [stdout] 525 | fn populate_clusters1( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `get_best_perms_mec` [INFO] [stdout] --> src/vcf_polishing.rs:118:4 [INFO] [stdout] | [INFO] [stdout] 118 | fn get_best_perms_mec(part1: &Vec>, part2: &Vec>) -> Vec> { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `get_mec_from_part` [INFO] [stdout] --> src/vcf_polishing.rs:249:4 [INFO] [stdout] | [INFO] [stdout] 249 | fn get_mec_from_part(part : &Vec>) -> i32{ [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 10 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished dev [optimized + debuginfo] target(s) in 8m 34s [INFO] running `Command { std: "docker" "inspect" "10686ad32ea4987398771ce5f36f801193b8e5e475d079535e8d39bf03f2fc9a", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "10686ad32ea4987398771ce5f36f801193b8e5e475d079535e8d39bf03f2fc9a", kill_on_drop: false }` [INFO] [stdout] 10686ad32ea4987398771ce5f36f801193b8e5e475d079535e8d39bf03f2fc9a [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/var/lib/crater-agent-workspace/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:ac0d0aa6ec8ed129e241004a6179c99fa0d2616f50ba759c5b60bd26d0fafa02" "/opt/rustwide/cargo-home/bin/cargo" "+615edd3ad1cf6871c977dc900317cb6c2070fd6b" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] d6c5a87f5c1762dd1cf279910757a71720686cf7517a5500cb9a960c0e24a3fd [INFO] running `Command { std: "docker" "start" "-a" "d6c5a87f5c1762dd1cf279910757a71720686cf7517a5500cb9a960c0e24a3fd", kill_on_drop: false }` [INFO] [stderr] Compiling doc-comment v0.3.3 [INFO] [stderr] Compiling predicates-core v1.0.0 [INFO] [stderr] Compiling treeline v0.1.0 [INFO] [stderr] Compiling normalize-line-endings v0.3.0 [INFO] [stderr] Compiling difference v2.0.0 [INFO] [stderr] Compiling wait-timeout v0.2.0 [INFO] [stderr] Compiling float-cmp v0.8.0 [INFO] [stdout] warning: unused macro definition: `debug` [INFO] [stdout] --> src/local_clustering.rs:11:14 [INFO] [stdout] | [INFO] [stdout] 11 | macro_rules! debug { [INFO] [stdout] | ^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_macros)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `block` [INFO] [stdout] --> src/file_reader.rs:134:13 [INFO] [stdout] | [INFO] [stdout] 134 | for (i, block) in blocks.iter().enumerate() { [INFO] [stdout] | ^^^^^ help: if this is intentional, prefix it with an underscore: `_block` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable `number_references` is assigned to, but never used [INFO] [stdout] --> src/file_reader.rs:262:13 [INFO] [stdout] | [INFO] [stdout] 262 | let mut number_references = 0; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: consider using `_number_references` instead [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `number_references` is never read [INFO] [stdout] --> src/file_reader.rs:265:13 [INFO] [stdout] | [INFO] [stdout] 265 | number_references = content.len(); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_assignments)]` on by default [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `dist` [INFO] [stdout] --> src/vcf_polishing.rs:716:13 [INFO] [stdout] | [INFO] [stdout] 716 | let dist = &part_size_distribution_sum[j]; [INFO] [stdout] | ^^^^ help: if this is intentional, prefix it with an underscore: `_dist` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `all_frags` [INFO] [stdout] --> src/vcf_polishing.rs:641:5 [INFO] [stdout] | [INFO] [stdout] 641 | all_frags: &'a Vec, [INFO] [stdout] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_all_frags` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `populate_clusters2_binom` [INFO] [stdout] --> src/local_clustering.rs:427:4 [INFO] [stdout] | [INFO] [stdout] 427 | fn populate_clusters2_binom( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `populate_clusters1` [INFO] [stdout] --> src/local_clustering.rs:525:4 [INFO] [stdout] | [INFO] [stdout] 525 | fn populate_clusters1( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `get_best_perms_mec` [INFO] [stdout] --> src/vcf_polishing.rs:118:4 [INFO] [stdout] | [INFO] [stdout] 118 | fn get_best_perms_mec(part1: &Vec>, part2: &Vec>) -> Vec> { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `get_mec_from_part` [INFO] [stdout] --> src/vcf_polishing.rs:249:4 [INFO] [stdout] | [INFO] [stdout] 249 | fn get_mec_from_part(part : &Vec>) -> i32{ [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 10 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Compiling predicates-tree v1.0.0 [INFO] [stderr] Compiling predicates v1.0.5 [INFO] [stderr] Compiling assert_cmd v1.0.1 [INFO] [stderr] Compiling flopp v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused import: `predicates::prelude::*` [INFO] [stdout] --> tests/integration_test.rs:2:5 [INFO] [stdout] | [INFO] [stdout] 2 | use predicates::prelude::*; // Used for writing assertions [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::time::Instant` [INFO] [stdout] --> tests/frag_reader_test.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use std::time::Instant; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `FxHashMap` [INFO] [stdout] --> tests/frag_reader_test.rs:5:24 [INFO] [stdout] | [INFO] [stdout] 5 | use fxhash::{FxHashSet,FxHashMap}; [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `BTreeMap`, `HashSet` [INFO] [stdout] --> tests/frag_reader_test.rs:6:24 [INFO] [stdout] | [INFO] [stdout] 6 | use std::collections::{HashSet,BTreeMap}; [INFO] [stdout] | ^^^^^^^ ^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `indexed_reads` [INFO] [stdout] --> tests/frag_reader_test.rs:57:9 [INFO] [stdout] | [INFO] [stdout] 57 | let indexed_reads = utils_frags::get_all_overlaps(frags); [INFO] [stdout] | ^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_indexed_reads` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused macro definition: `debug` [INFO] [stdout] --> src/local_clustering.rs:11:14 [INFO] [stdout] | [INFO] [stdout] 11 | macro_rules! debug { [INFO] [stdout] | ^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_macros)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `block` [INFO] [stdout] --> src/file_reader.rs:134:13 [INFO] [stdout] | [INFO] [stdout] 134 | for (i, block) in blocks.iter().enumerate() { [INFO] [stdout] | ^^^^^ help: if this is intentional, prefix it with an underscore: `_block` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable `number_references` is assigned to, but never used [INFO] [stdout] --> src/file_reader.rs:262:13 [INFO] [stdout] | [INFO] [stdout] 262 | let mut number_references = 0; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: consider using `_number_references` instead [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `number_references` is never read [INFO] [stdout] --> src/file_reader.rs:265:13 [INFO] [stdout] | [INFO] [stdout] 265 | number_references = content.len(); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_assignments)]` on by default [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `dist` [INFO] [stdout] --> src/vcf_polishing.rs:716:13 [INFO] [stdout] | [INFO] [stdout] 716 | let dist = &part_size_distribution_sum[j]; [INFO] [stdout] | ^^^^ help: if this is intentional, prefix it with an underscore: `_dist` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `all_frags` [INFO] [stdout] --> src/vcf_polishing.rs:641:5 [INFO] [stdout] | [INFO] [stdout] 641 | all_frags: &'a Vec, [INFO] [stdout] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_all_frags` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `populate_clusters2_binom` [INFO] [stdout] --> src/local_clustering.rs:427:4 [INFO] [stdout] | [INFO] [stdout] 427 | fn populate_clusters2_binom( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `populate_clusters1` [INFO] [stdout] --> src/local_clustering.rs:525:4 [INFO] [stdout] | [INFO] [stdout] 525 | fn populate_clusters1( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `get_best_perms_mec` [INFO] [stdout] --> src/vcf_polishing.rs:118:4 [INFO] [stdout] | [INFO] [stdout] 118 | fn get_best_perms_mec(part1: &Vec>, part2: &Vec>) -> Vec> { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `get_mec_from_part` [INFO] [stdout] --> src/vcf_polishing.rs:249:4 [INFO] [stdout] | [INFO] [stdout] 249 | fn get_mec_from_part(part : &Vec>) -> i32{ [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 10 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 1 warning emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 4 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished test [optimized + debuginfo] target(s) in 23.12s [INFO] [stderr] Executable unittests src/lib.rs (/opt/rustwide/target/debug/deps/flopp-974942d5785edcec) [INFO] [stderr] Executable unittests src/bin/flopp.rs (/opt/rustwide/target/debug/deps/flopp-cf4726d121d67339) [INFO] [stderr] Executable unittests src/bin/frag-dump.rs (/opt/rustwide/target/debug/deps/frag_dump-5088f3d8d4bd6055) [INFO] [stderr] Executable tests/frag_reader_test.rs (/opt/rustwide/target/debug/deps/frag_reader_test-455fff8b0bbd2049) [INFO] [stderr] Executable tests/integration_test.rs (/opt/rustwide/target/debug/deps/integration_test-26c473276a6634f9) [INFO] running `Command { std: "docker" "inspect" "d6c5a87f5c1762dd1cf279910757a71720686cf7517a5500cb9a960c0e24a3fd", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "d6c5a87f5c1762dd1cf279910757a71720686cf7517a5500cb9a960c0e24a3fd", kill_on_drop: false }` [INFO] [stdout] d6c5a87f5c1762dd1cf279910757a71720686cf7517a5500cb9a960c0e24a3fd