[INFO] fetching crate bio-jtools 2020.5.31... [INFO] testing bio-jtools-2020.5.31 against 1.44.0 for beta-1.45-1 [INFO] extracting crate bio-jtools 2020.5.31 into /workspace/builds/worker-1/source [INFO] validating manifest of crates.io crate bio-jtools 2020.5.31 on toolchain 1.44.0 [INFO] running `"/workspace/cargo-home/bin/cargo" "+1.44.0" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] started tweaking crates.io crate bio-jtools 2020.5.31 [INFO] finished tweaking crates.io crate bio-jtools 2020.5.31 [INFO] tweaked toml for crates.io crate bio-jtools 2020.5.31 written to /workspace/builds/worker-1/source/Cargo.toml [INFO] crate crates.io crate bio-jtools 2020.5.31 already has a lockfile, it will not be regenerated [INFO] running `"/workspace/cargo-home/bin/cargo" "+1.44.0" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1/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" "MAP_USER_ID=0" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--network" "none" "rustops/crates-build-env" "/opt/rustwide/cargo-home/bin/cargo" "+1.44.0" "build" "--frozen"` [INFO] [stdout] dae90f77024631b1cc4541fa029bfd7a803c158b060c35dc4fc8ff2b4a9cb611 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `"docker" "start" "-a" "dae90f77024631b1cc4541fa029bfd7a803c158b060c35dc4fc8ff2b4a9cb611"` [INFO] [stderr] sudo: setrlimit(RLIMIT_CORE): Operation not permitted [INFO] [stderr] Compiling proc-macro2 v1.0.8 [INFO] [stderr] Compiling syn v1.0.14 [INFO] [stderr] Compiling autocfg v0.1.7 [INFO] [stderr] Compiling rand_core v0.4.2 [INFO] [stderr] Compiling memchr v2.3.0 [INFO] [stderr] Compiling serde v1.0.104 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling syn v0.15.44 [INFO] [stderr] Compiling pkg-config v0.3.17 [INFO] [stderr] Compiling feature-probe v0.1.1 [INFO] [stderr] Compiling doc-comment v0.3.1 [INFO] [stderr] Compiling crc32fast v1.2.0 [INFO] [stderr] Compiling ndarray v0.13.0 [INFO] [stderr] Compiling rawpointer v0.2.1 [INFO] [stderr] Compiling regex-syntax v0.6.18 [INFO] [stderr] Compiling adler32 v1.0.4 [INFO] [stderr] Compiling bitflags v1.2.1 [INFO] [stderr] Compiling unicode-segmentation v1.6.0 [INFO] [stderr] Compiling unicode-width v0.1.7 [INFO] [stderr] Compiling bio v0.30.0 [INFO] [stderr] Compiling ordermap v0.3.5 [INFO] [stderr] Compiling quick-error v1.2.3 [INFO] [stderr] Compiling fixedbitset v0.1.9 [INFO] [stderr] Compiling bit-vec v0.5.1 [INFO] [stderr] Compiling itoa v0.4.5 [INFO] [stderr] Compiling bytecount v0.6.0 [INFO] [stderr] Compiling safemem v0.3.3 [INFO] [stderr] Compiling strsim v0.8.0 [INFO] [stderr] Compiling yaml-rust v0.3.5 [INFO] [stderr] Compiling strum v0.16.0 [INFO] [stderr] Compiling ansi_term v0.11.0 [INFO] [stderr] Compiling fnv v1.0.6 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling same-file v1.0.6 [INFO] [stderr] Compiling bzip2-sys v0.1.8+1.0.8 [INFO] [stderr] Compiling num-complex v0.2.4 [INFO] [stderr] Compiling matrixmultiply v0.2.3 [INFO] [stderr] Compiling rand_core v0.3.1 [INFO] [stderr] Compiling rand_jitter v0.1.4 [INFO] [stderr] Compiling miniz_oxide v0.3.6 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Compiling bv v0.11.0 [INFO] [stderr] Compiling textwrap v0.11.0 [INFO] [stderr] Compiling bit-set v0.5.1 [INFO] [stderr] Compiling heck v0.3.1 [INFO] [stderr] Compiling rand_isaac v0.1.1 [INFO] [stderr] Compiling rand_hc v0.1.0 [INFO] [stderr] Compiling rand_xorshift v0.1.1 [INFO] [stderr] Compiling rand_pcg v0.1.2 [INFO] [stderr] Compiling rand_chacha v0.1.1 [INFO] [stderr] Compiling rand v0.6.5 [INFO] [stderr] Compiling walkdir v2.3.1 [INFO] [stderr] Compiling petgraph v0.4.13 [INFO] [stderr] Compiling rand_os v0.1.3 [INFO] [stderr] Compiling atty v0.2.14 [INFO] [stderr] Compiling backtrace-sys v0.1.32 [INFO] [stderr] Compiling regex-automata v0.1.8 [INFO] [stderr] Compiling fxhash v0.2.1 [INFO] [stderr] Compiling lzma-sys v0.1.16 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling ordered-float v1.0.2 [INFO] [stderr] Compiling approx v0.3.2 [INFO] [stderr] Compiling itertools-num v0.1.3 [INFO] [stderr] Compiling backtrace v0.3.43 [INFO] [stderr] Compiling flate2 v1.0.13 [INFO] [stderr] Compiling chrono v0.4.11 [INFO] [stderr] Compiling aho-corasick v0.7.8 [INFO] [stderr] Compiling csv-core v0.1.6 [INFO] [stderr] Compiling quote v1.0.2 [INFO] [stderr] Compiling bzip2 v0.3.3 [INFO] [stderr] Compiling xz2 v0.1.6 [INFO] [stderr] Compiling needletail v0.3.2 [INFO] [stderr] Compiling regex v1.3.9 [INFO] [stderr] Compiling statrs v0.11.0 [INFO] [stderr] Compiling snafu-derive v0.5.0 [INFO] [stderr] Compiling serde_derive v1.0.104 [INFO] [stderr] Compiling getset v0.0.9 [INFO] [stderr] Compiling strum_macros v0.16.0 [INFO] [stderr] Compiling snafu v0.5.0 [INFO] [stderr] Compiling bstr v0.2.11 [INFO] [stderr] Compiling vec_map v0.8.1 [INFO] [stderr] Compiling multimap v0.6.0 [INFO] [stderr] Compiling bio-types v0.5.1 [INFO] [stderr] Compiling clap v2.33.0 [INFO] [stderr] Compiling csv v1.1.3 [INFO] [stderr] Compiling bio-jtools v2020.5.31 (/opt/rustwide/workdir) [INFO] [stderr] warning: unused import: `std::error::Error` [INFO] [stderr] --> src/data/mod.rs:4:5 [INFO] [stderr] | [INFO] [stderr] 4 | use std::error::Error; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused variable: `o` [INFO] [stderr] --> src/main.rs:152:24 [INFO] [stderr] | [INFO] [stderr] 152 | } else if let Some(o) = _matches.subcommand_matches("kspec") { [INFO] [stderr] | ^ help: if this is intentional, prefix it with an underscore: `_o` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_variables)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused variable: `o` [INFO] [stderr] --> src/main.rs:154:24 [INFO] [stderr] | [INFO] [stderr] 154 | } else if let Some(o) = _matches.subcommand_matches("filter") { [INFO] [stderr] | ^ help: if this is intentional, prefix it with an underscore: `_o` [INFO] [stderr] [INFO] [stderr] warning: unused variable: `seqtype` [INFO] [stderr] --> src/data/mod.rs:291:31 [INFO] [stderr] | [INFO] [stderr] 291 | pub fn organize(indir: &Path, seqtype: &str, dryrun: bool, verbose: bool) { [INFO] [stderr] | ^^^^^^^ help: if this is intentional, prefix it with an underscore: `_seqtype` [INFO] [stderr] [INFO] [stderr] warning: unused variable: `rec_a` [INFO] [stderr] --> src/interval/mod.rs:12:9 [INFO] [stderr] | [INFO] [stderr] 12 | let mut rec_a = records_a.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_rec_a` [INFO] [stderr] [INFO] [stderr] warning: unused variable: `rec_b` [INFO] [stderr] --> src/interval/mod.rs:13:9 [INFO] [stderr] | [INFO] [stderr] 13 | let mut rec_b = records_b.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_rec_b` [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/interval/mod.rs:12:9 [INFO] [stderr] | [INFO] [stderr] 12 | let mut rec_a = records_a.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ----^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_mut)]` on by default [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/interval/mod.rs:13:9 [INFO] [stderr] | [INFO] [stderr] 13 | let mut rec_b = records_b.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ----^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] [INFO] [stderr] warning: 8 warnings emitted [INFO] [stderr] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 2m 02s [INFO] running `"docker" "inspect" "dae90f77024631b1cc4541fa029bfd7a803c158b060c35dc4fc8ff2b4a9cb611"` [INFO] running `"docker" "rm" "-f" "dae90f77024631b1cc4541fa029bfd7a803c158b060c35dc4fc8ff2b4a9cb611"` [INFO] [stdout] dae90f77024631b1cc4541fa029bfd7a803c158b060c35dc4fc8ff2b4a9cb611 [INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1/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" "MAP_USER_ID=0" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--network" "none" "rustops/crates-build-env" "/opt/rustwide/cargo-home/bin/cargo" "+1.44.0" "test" "--frozen" "--no-run"` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] bc22cc190cee0c07add21fa45d6535b85eec7312032de04281a36cbd019f50d1 [INFO] running `"docker" "start" "-a" "bc22cc190cee0c07add21fa45d6535b85eec7312032de04281a36cbd019f50d1"` [INFO] [stderr] sudo: setrlimit(RLIMIT_CORE): Operation not permitted [INFO] [stderr] Compiling bio-jtools v2020.5.31 (/opt/rustwide/workdir) [INFO] [stderr] warning: unused import: `std::error::Error` [INFO] [stderr] --> src/data/mod.rs:4:5 [INFO] [stderr] | [INFO] [stderr] 4 | use std::error::Error; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused variable: `o` [INFO] [stderr] --> src/main.rs:152:24 [INFO] [stderr] | [INFO] [stderr] 152 | } else if let Some(o) = _matches.subcommand_matches("kspec") { [INFO] [stderr] | ^ help: if this is intentional, prefix it with an underscore: `_o` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_variables)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused variable: `o` [INFO] [stderr] --> src/main.rs:154:24 [INFO] [stderr] | [INFO] [stderr] 154 | } else if let Some(o) = _matches.subcommand_matches("filter") { [INFO] [stderr] | ^ help: if this is intentional, prefix it with an underscore: `_o` [INFO] [stderr] [INFO] [stderr] warning: unused variable: `seqtype` [INFO] [stderr] --> src/data/mod.rs:291:31 [INFO] [stderr] | [INFO] [stderr] 291 | pub fn organize(indir: &Path, seqtype: &str, dryrun: bool, verbose: bool) { [INFO] [stderr] | ^^^^^^^ help: if this is intentional, prefix it with an underscore: `_seqtype` [INFO] [stderr] [INFO] [stderr] warning: unused variable: `rec_a` [INFO] [stderr] --> src/interval/mod.rs:12:9 [INFO] [stderr] | [INFO] [stderr] 12 | let mut rec_a = records_a.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_rec_a` [INFO] [stderr] [INFO] [stderr] warning: unused variable: `rec_b` [INFO] [stderr] --> src/interval/mod.rs:13:9 [INFO] [stderr] | [INFO] [stderr] 13 | let mut rec_b = records_b.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_rec_b` [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/interval/mod.rs:12:9 [INFO] [stderr] | [INFO] [stderr] 12 | let mut rec_a = records_a.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ----^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_mut)]` on by default [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/interval/mod.rs:13:9 [INFO] [stderr] | [INFO] [stderr] 13 | let mut rec_b = records_b.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ----^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] [INFO] [stderr] warning: 8 warnings emitted [INFO] [stderr] [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 1.10s [INFO] running `"docker" "inspect" "bc22cc190cee0c07add21fa45d6535b85eec7312032de04281a36cbd019f50d1"` [INFO] running `"docker" "rm" "-f" "bc22cc190cee0c07add21fa45d6535b85eec7312032de04281a36cbd019f50d1"` [INFO] [stdout] bc22cc190cee0c07add21fa45d6535b85eec7312032de04281a36cbd019f50d1 [INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1/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" "MAP_USER_ID=0" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--network" "none" "rustops/crates-build-env" "/opt/rustwide/cargo-home/bin/cargo" "+1.44.0" "test" "--frozen"` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] 03a407ee7c8e89b62c3644afd1bec474777178177f34a6473eb77253aab33589 [INFO] running `"docker" "start" "-a" "03a407ee7c8e89b62c3644afd1bec474777178177f34a6473eb77253aab33589"` [INFO] [stderr] sudo: setrlimit(RLIMIT_CORE): Operation not permitted [INFO] [stderr] warning: unused import: `std::error::Error` [INFO] [stderr] --> src/data/mod.rs:4:5 [INFO] [stderr] | [INFO] [stderr] 4 | use std::error::Error; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused variable: `o` [INFO] [stderr] --> src/main.rs:152:24 [INFO] [stderr] | [INFO] [stderr] 152 | } else if let Some(o) = _matches.subcommand_matches("kspec") { [INFO] [stderr] | ^ help: if this is intentional, prefix it with an underscore: `_o` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_variables)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused variable: `o` [INFO] [stderr] --> src/main.rs:154:24 [INFO] [stderr] | [INFO] [stderr] 154 | } else if let Some(o) = _matches.subcommand_matches("filter") { [INFO] [stderr] | ^ help: if this is intentional, prefix it with an underscore: `_o` [INFO] [stderr] [INFO] [stderr] warning: unused variable: `seqtype` [INFO] [stderr] --> src/data/mod.rs:291:31 [INFO] [stderr] | [INFO] [stderr] 291 | pub fn organize(indir: &Path, seqtype: &str, dryrun: bool, verbose: bool) { [INFO] [stderr] | ^^^^^^^ help: if this is intentional, prefix it with an underscore: `_seqtype` [INFO] [stderr] [INFO] [stderr] warning: unused variable: `rec_a` [INFO] [stderr] --> src/interval/mod.rs:12:9 [INFO] [stderr] | [INFO] [stderr] 12 | let mut rec_a = records_a.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_rec_a` [INFO] [stderr] [INFO] [stderr] warning: unused variable: `rec_b` [INFO] [stderr] --> src/interval/mod.rs:13:9 [INFO] [stderr] | [INFO] [stderr] 13 | let mut rec_b = records_b.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_rec_b` [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/interval/mod.rs:12:9 [INFO] [stderr] | [INFO] [stderr] 12 | let mut rec_a = records_a.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ----^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_mut)]` on by default [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/interval/mod.rs:13:9 [INFO] [stderr] | [INFO] [stderr] 13 | let mut rec_b = records_b.next().unwrap().ok().expect("Error reading record."); [INFO] [stderr] | ----^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] [INFO] [stderr] warning: 8 warnings emitted [INFO] [stderr] [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 0.23s [INFO] [stderr] Running /opt/rustwide/target/debug/deps/bjt-425135068a03b2e5 [INFO] [stdout] [INFO] [stdout] running 0 tests [INFO] [stdout] [INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out [INFO] [stdout] [INFO] running `"docker" "inspect" "03a407ee7c8e89b62c3644afd1bec474777178177f34a6473eb77253aab33589"` [INFO] running `"docker" "rm" "-f" "03a407ee7c8e89b62c3644afd1bec474777178177f34a6473eb77253aab33589"` [INFO] [stdout] 03a407ee7c8e89b62c3644afd1bec474777178177f34a6473eb77253aab33589