[INFO] fetching crate bio-jtools 2020.5.31...
[INFO] testing bio-jtools-2020.5.31 against beta-2020-06-03 for beta-1.45-1
[INFO] extracting crate bio-jtools 2020.5.31 into /workspace/builds/worker-7/source
[INFO] validating manifest of crates.io crate bio-jtools 2020.5.31 on toolchain beta-2020-06-03
[INFO] running `"/workspace/cargo-home/bin/cargo" "+beta-2020-06-03" "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-7/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" "+beta-2020-06-03" "fetch" "--locked" "--manifest-path" "Cargo.toml"`
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded needletail v0.3.2
[INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/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" "+beta-2020-06-03" "build" "--frozen"`
[INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap.
[INFO] [stdout] 459f7abb44c34e81534ea39cca15bd50173345f546e6c84ae1c8e0a815a599a9
[INFO] running `"docker" "start" "-a" "459f7abb44c34e81534ea39cca15bd50173345f546e6c84ae1c8e0a815a599a9"`
[INFO] [stderr] sudo: setrlimit(RLIMIT_CORE): Operation not permitted
[INFO] [stderr]    Compiling libc v0.2.71
[INFO] [stderr]    Compiling proc-macro2 v1.0.8
[INFO] [stderr]    Compiling syn v1.0.14
[INFO] [stderr]    Compiling serde v1.0.104
[INFO] [stderr]    Compiling memchr v2.3.0
[INFO] [stderr]    Compiling semver v0.1.20
[INFO] [stderr]    Compiling pkg-config v0.3.17
[INFO] [stderr]    Compiling syn v0.15.44
[INFO] [stderr]    Compiling ryu v1.0.2
[INFO] [stderr]    Compiling doc-comment v0.3.1
[INFO] [stderr]    Compiling crc32fast v1.2.0
[INFO] [stderr]    Compiling feature-probe v0.1.1
[INFO] [stderr]    Compiling adler32 v1.0.4
[INFO] [stderr]    Compiling ndarray v0.13.0
[INFO] [stderr]    Compiling rawpointer v0.2.1
[INFO] [stderr]    Compiling fixedbitset v0.1.9
[INFO] [stderr]    Compiling bio v0.30.0
[INFO] [stderr]    Compiling ordermap v0.3.5
[INFO] [stderr]    Compiling bit-vec v0.5.1
[INFO] [stderr]    Compiling itoa v0.4.5
[INFO] [stderr]    Compiling quick-error v1.2.3
[INFO] [stderr]    Compiling safemem v0.3.3
[INFO] [stderr]    Compiling same-file v1.0.6
[INFO] [stderr]    Compiling yaml-rust v0.3.5
[INFO] [stderr]    Compiling strum v0.16.0
[INFO] [stderr]    Compiling bytecount v0.6.0
[INFO] [stderr]    Compiling custom_derive v0.1.7
[INFO] [stderr]    Compiling fnv v1.0.6
[INFO] [stderr]    Compiling backtrace-sys v0.1.32
[INFO] [stderr]    Compiling num-integer v0.1.42
[INFO] [stderr]    Compiling num-complex v0.2.4
[INFO] [stderr]    Compiling bzip2-sys v0.1.8+1.0.8
[INFO] [stderr]    Compiling miniz_oxide v0.3.6
[INFO] [stderr]    Compiling itertools v0.8.2
[INFO] [stderr]    Compiling matrixmultiply v0.2.3
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]    Compiling bv v0.11.0
[INFO] [stderr]    Compiling petgraph v0.4.13
[INFO] [stderr]    Compiling bit-set v0.5.1
[INFO] [stderr]    Compiling walkdir v2.3.1
[INFO] [stderr]    Compiling regex-automata v0.1.8
[INFO] [stderr]    Compiling fxhash v0.2.1
[INFO] [stderr]    Compiling itertools-num v0.1.3
[INFO] [stderr]    Compiling approx v0.3.2
[INFO] [stderr]    Compiling ordered-float v1.0.2
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]    Compiling lzma-sys v0.1.16
[INFO] [stderr]    Compiling quote v1.0.2
[INFO] [stderr]    Compiling rand_os v0.1.3
[INFO] [stderr]    Compiling atty v0.2.14
[INFO] [stderr]    Compiling flate2 v1.0.13
[INFO] [stderr]    Compiling time v0.1.43
[INFO] [stderr]    Compiling bzip2 v0.3.3
[INFO] [stderr]    Compiling rand v0.6.5
[INFO] [stderr]    Compiling backtrace v0.3.43
[INFO] [stderr]    Compiling aho-corasick v0.7.8
[INFO] [stderr]    Compiling csv-core v0.1.6
[INFO] [stderr]    Compiling chrono v0.4.11
[INFO] [stderr]    Compiling xz2 v0.1.6
[INFO] [stderr]    Compiling needletail v0.3.2
[INFO] [stderr]    Compiling statrs v0.11.0
[INFO] [stderr]    Compiling regex v1.3.9
[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-derive v0.5.0
[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 bio-types v0.5.1
[INFO] [stderr]    Compiling multimap v0.6.0
[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 1m 48s
[INFO] running `"docker" "inspect" "459f7abb44c34e81534ea39cca15bd50173345f546e6c84ae1c8e0a815a599a9"`
[INFO] running `"docker" "rm" "-f" "459f7abb44c34e81534ea39cca15bd50173345f546e6c84ae1c8e0a815a599a9"`
[INFO] [stdout] 459f7abb44c34e81534ea39cca15bd50173345f546e6c84ae1c8e0a815a599a9
[INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/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" "+beta-2020-06-03" "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] 39f198fdb6e64814dc638a84b990b7ace7d383bec0a01113f14415a767662803
[INFO] running `"docker" "start" "-a" "39f198fdb6e64814dc638a84b990b7ace7d383bec0a01113f14415a767662803"`
[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 1.19s
[INFO] running `"docker" "inspect" "39f198fdb6e64814dc638a84b990b7ace7d383bec0a01113f14415a767662803"`
[INFO] running `"docker" "rm" "-f" "39f198fdb6e64814dc638a84b990b7ace7d383bec0a01113f14415a767662803"`
[INFO] [stdout] 39f198fdb6e64814dc638a84b990b7ace7d383bec0a01113f14415a767662803
[INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/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" "+beta-2020-06-03" "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] 3257a51bab7a74c899a9584ba2e8a2bedf2b9429d75f61fd52f85fe3fb4ea307
[INFO] running `"docker" "start" "-a" "3257a51bab7a74c899a9584ba2e8a2bedf2b9429d75f61fd52f85fe3fb4ea307"`
[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 0.19s
[INFO] [stderr]      Running /opt/rustwide/target/debug/deps/bjt-7b89285540881fdf
[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" "3257a51bab7a74c899a9584ba2e8a2bedf2b9429d75f61fd52f85fe3fb4ea307"`
[INFO] running `"docker" "rm" "-f" "3257a51bab7a74c899a9584ba2e8a2bedf2b9429d75f61fd52f85fe3fb4ea307"`
[INFO] [stdout] 3257a51bab7a74c899a9584ba2e8a2bedf2b9429d75f61fd52f85fe3fb4ea307