[INFO] cloning repository https://github.com/bluenote-1577/vartig-utils [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/vartig-utils" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbluenote-1577%2Fvartig-utils", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbluenote-1577%2Fvartig-utils'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] d85485ae18c17ca3aafb37502f2bb81c9d04bea5 [INFO] checking bluenote-1577/vartig-utils against master#0fb279be1d96464c69209053ef0f97ad63088cda for pr-143857 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbluenote-1577%2Fvartig-utils" "/workspace/builds/worker-7-tc1/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-7-tc1/source'... [INFO] [stderr] done. [INFO] started tweaking git repo https://github.com/bluenote-1577/vartig-utils [INFO] finished tweaking git repo https://github.com/bluenote-1577/vartig-utils [INFO] tweaked toml for git repo https://github.com/bluenote-1577/vartig-utils written to /workspace/builds/worker-7-tc1/source/Cargo.toml [INFO] validating manifest of git repo https://github.com/bluenote-1577/vartig-utils on toolchain 0fb279be1d96464c69209053ef0f97ad63088cda [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+0fb279be1d96464c69209053ef0f97ad63088cda" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate git repo https://github.com/bluenote-1577/vartig-utils 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" "+0fb279be1d96464c69209053ef0f97ad63088cda" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Updating crates.io index [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded bio-types v1.0.1 [INFO] [stderr] Downloaded fs-utils v1.1.4 [INFO] [stderr] Downloaded rust-htslib v0.44.1 [INFO] [stderr] Downloaded hts-sys v2.1.1 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-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@sha256:90999bfc7ae267e83380e433d8e61a7c072ca6729e92edbae886d3423b3a6f4c" "/opt/rustwide/cargo-home/bin/cargo" "+0fb279be1d96464c69209053ef0f97ad63088cda" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 287fdad172be43363f6a5df6f54e0147cb5c55be201fc64eb837e5880b1a1df2 [INFO] running `Command { std: "docker" "start" "-a" "287fdad172be43363f6a5df6f54e0147cb5c55be201fc64eb837e5880b1a1df2", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "287fdad172be43363f6a5df6f54e0147cb5c55be201fc64eb837e5880b1a1df2", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "287fdad172be43363f6a5df6f54e0147cb5c55be201fc64eb837e5880b1a1df2", kill_on_drop: false }` [INFO] [stdout] 287fdad172be43363f6a5df6f54e0147cb5c55be201fc64eb837e5880b1a1df2 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-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@sha256:90999bfc7ae267e83380e433d8e61a7c072ca6729e92edbae886d3423b3a6f4c" "/opt/rustwide/cargo-home/bin/cargo" "+0fb279be1d96464c69209053ef0f97ad63088cda" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 5d14ea63dace12b1d69d47e1cb4c48fad35b82a342341995e4236c9dc21c7436 [INFO] running `Command { std: "docker" "start" "-a" "5d14ea63dace12b1d69d47e1cb4c48fad35b82a342341995e4236c9dc21c7436", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.139 [INFO] [stderr] Compiling autocfg v1.1.0 [INFO] [stderr] Compiling proc-macro2 v1.0.67 [INFO] [stderr] Compiling unicode-ident v1.0.12 [INFO] [stderr] Compiling crossbeam-utils v0.8.16 [INFO] [stderr] Checking cfg-if v1.0.0 [INFO] [stderr] Compiling pkg-config v0.3.27 [INFO] [stderr] Compiling vcpkg v0.2.15 [INFO] [stderr] Checking tinyvec_macros v0.1.1 [INFO] [stderr] Checking memchr v2.6.3 [INFO] [stderr] Compiling rustversion v1.0.14 [INFO] [stderr] Compiling quick-error v1.2.3 [INFO] [stderr] Compiling syn v1.0.109 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling thiserror v1.0.48 [INFO] [stderr] Checking regex-syntax v0.7.5 [INFO] [stderr] Checking scopeguard v1.2.0 [INFO] [stderr] Compiling fs-utils v1.1.4 [INFO] [stderr] Checking tinyvec v1.6.0 [INFO] [stderr] Compiling glob v0.3.1 [INFO] [stderr] Compiling rayon-core v1.11.0 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Checking percent-encoding v2.3.0 [INFO] [stderr] Compiling heck v0.4.1 [INFO] [stderr] Checking unicode-bidi v0.3.13 [INFO] [stderr] Checking form_urlencoded v1.2.0 [INFO] [stderr] Compiling memoffset v0.9.0 [INFO] [stderr] Compiling crossbeam-epoch v0.9.15 [INFO] [stderr] Checking aho-corasick v1.1.0 [INFO] [stderr] Compiling indexmap v1.9.2 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling num-traits v0.2.15 [INFO] [stderr] Checking hashbrown v0.12.3 [INFO] [stderr] Compiling quote v1.0.33 [INFO] [stderr] Checking byteorder v1.4.3 [INFO] [stderr] Checking crossbeam-channel v0.5.8 [INFO] [stderr] Checking unicode-normalization v0.1.22 [INFO] [stderr] Checking lazy_static v1.4.0 [INFO] [stderr] Checking os_str_bytes v6.4.1 [INFO] [stderr] Compiling syn v2.0.37 [INFO] [stderr] Checking bitflags v1.3.2 [INFO] [stderr] Checking either v1.9.0 [INFO] [stderr] Checking clap_lex v0.2.4 [INFO] [stderr] Checking ieee754 v0.2.6 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking crossbeam-deque v0.8.3 [INFO] [stderr] Checking strsim v0.10.0 [INFO] [stderr] Checking num_cpus v1.16.0 [INFO] [stderr] Compiling jobserver v0.1.26 [INFO] [stderr] Checking atty v0.2.14 [INFO] [stderr] Checking idna v0.4.0 [INFO] [stderr] Checking linear-map v1.2.0 [INFO] [stderr] Checking textwrap v0.16.0 [INFO] [stderr] Checking termcolor v1.2.0 [INFO] [stderr] Checking fxhash v0.2.1 [INFO] [stderr] Compiling cc v1.0.83 [INFO] [stderr] Checking clap v3.2.23 [INFO] [stderr] Checking regex-automata v0.3.8 [INFO] [stderr] Checking url v2.4.1 [INFO] [stderr] Checking ordered-float v2.10.0 [INFO] [stderr] Compiling cmake v0.1.50 [INFO] [stderr] Checking rayon v1.7.0 [INFO] [stderr] Compiling hts-sys v2.1.1 [INFO] [stderr] Compiling libz-sys v1.1.12 [INFO] [stderr] Compiling derive-new v0.5.9 [INFO] [stderr] Compiling thiserror-impl v1.0.48 [INFO] [stderr] Compiling strum_macros v0.25.2 [INFO] [stderr] Checking regex v1.9.5 [INFO] [stderr] Checking bio-types v1.0.1 [INFO] [stderr] Checking rust-htslib v0.44.1 [INFO] [stderr] Checking vtig v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused imports: `Hash` and `Hasher` [INFO] [stdout] --> src/vartig.rs:4:17 [INFO] [stdout] | [INFO] [stdout] 4 | use std::hash::{Hash, Hasher}; [INFO] [stdout] | ^^^^ ^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `Hash` and `Hasher` [INFO] [stdout] --> src/vartig.rs:4:17 [INFO] [stdout] | [INFO] [stdout] 4 | use std::hash::{Hash, Hasher}; [INFO] [stdout] | ^^^^ ^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable `other_vcf_snppos_to_pos` is assigned to, but never used [INFO] [stdout] --> src/vartig.rs:76:9 [INFO] [stdout] | [INFO] [stdout] 76 | let other_vcf_snppos_to_pos; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: consider using `_other_vcf_snppos_to_pos` instead [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `other_vcf_snppos_to_pos` is never read [INFO] [stdout] --> src/vartig.rs:79:38 [INFO] [stdout] | [INFO] [stdout] 79 | (other_vcf_snppos_to_allele, other_vcf_snppos_to_pos) = get_vcf_profile(other_vcf.unwrap()) [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] = note: `#[warn(unused_assignments)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `other_vcf_snppos_to_pos` is never read [INFO] [stdout] --> src/vartig.rs:83:9 [INFO] [stdout] | [INFO] [stdout] 83 | other_vcf_snppos_to_pos = HashMap::default(); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable `other_vcf_snppos_to_pos` is assigned to, but never used [INFO] [stdout] --> src/vartig.rs:76:9 [INFO] [stdout] | [INFO] [stdout] 76 | let other_vcf_snppos_to_pos; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: consider using `_other_vcf_snppos_to_pos` instead [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `other_vcf_snppos_to_pos` is never read [INFO] [stdout] --> src/vartig.rs:79:38 [INFO] [stdout] | [INFO] [stdout] 79 | (other_vcf_snppos_to_allele, other_vcf_snppos_to_pos) = get_vcf_profile(other_vcf.unwrap()) [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] = note: `#[warn(unused_assignments)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `other_vcf_snppos_to_pos` is never read [INFO] [stdout] --> src/vartig.rs:83:9 [INFO] [stdout] | [INFO] [stdout] 83 | other_vcf_snppos_to_pos = HashMap::default(); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `error_cutoff` [INFO] [stdout] --> src/main.rs:208:13 [INFO] [stdout] | [INFO] [stdout] 208 | let error_cutoff = 0.0; [INFO] [stdout] | ^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_error_cutoff` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `cutoff_tig1_len` [INFO] [stdout] --> src/main.rs:283:13 [INFO] [stdout] | [INFO] [stdout] 283 | let cutoff_tig1_len = tig1 [INFO] [stdout] | ^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_cutoff_tig1_len` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `cutoff_tig2_len` [INFO] [stdout] --> src/main.rs:288:13 [INFO] [stdout] | [INFO] [stdout] 288 | let cutoff_tig2_len = tig2 [INFO] [stdout] | ^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_cutoff_tig2_len` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `x` [INFO] [stdout] --> src/main.rs:165:21 [INFO] [stdout] | [INFO] [stdout] 165 | let x = sync.lock().unwrap(); [INFO] [stdout] | ^ help: if this is intentional, prefix it with an underscore: `_x` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `error_cutoff` [INFO] [stdout] --> src/main.rs:208:13 [INFO] [stdout] | [INFO] [stdout] 208 | let error_cutoff = 0.0; [INFO] [stdout] | ^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_error_cutoff` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `cutoff_tig1_len` [INFO] [stdout] --> src/main.rs:283:13 [INFO] [stdout] | [INFO] [stdout] 283 | let cutoff_tig1_len = tig1 [INFO] [stdout] | ^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_cutoff_tig1_len` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `cutoff_tig2_len` [INFO] [stdout] --> src/main.rs:288:13 [INFO] [stdout] | [INFO] [stdout] 288 | let cutoff_tig2_len = tig2 [INFO] [stdout] | ^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_cutoff_tig2_len` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `x` [INFO] [stdout] --> src/main.rs:165:21 [INFO] [stdout] | [INFO] [stdout] 165 | let x = sync.lock().unwrap(); [INFO] [stdout] | ^ help: if this is intentional, prefix it with an underscore: `_x` [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `dev` profile [optimized + debuginfo] target(s) in 45.45s [INFO] running `Command { std: "docker" "inspect" "5d14ea63dace12b1d69d47e1cb4c48fad35b82a342341995e4236c9dc21c7436", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "5d14ea63dace12b1d69d47e1cb4c48fad35b82a342341995e4236c9dc21c7436", kill_on_drop: false }` [INFO] [stdout] 5d14ea63dace12b1d69d47e1cb4c48fad35b82a342341995e4236c9dc21c7436