[INFO] cloning repository https://github.com/clinico-omics/preqc-pack
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/clinico-omics/preqc-pack" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fclinico-omics%2Fpreqc-pack", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fclinico-omics%2Fpreqc-pack'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] f699d7eaf7c4d13f444f531cfca35ee766155e7b
[INFO] testing clinico-omics/preqc-pack against 1.55.0 for beta-1.56-1
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fclinico-omics%2Fpreqc-pack" "/workspace/builds/worker-1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-1/source'...
[INFO] [stderr] done.
[INFO] validating manifest of git repo https://github.com/clinico-omics/preqc-pack on toolchain 1.55.0
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.55.0" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking git repo https://github.com/clinico-omics/preqc-pack
[INFO] finished tweaking git repo https://github.com/clinico-omics/preqc-pack
[INFO] tweaked toml for git repo https://github.com/clinico-omics/preqc-pack written to /workspace/builds/worker-1/source/Cargo.toml
[INFO] crate git repo https://github.com/clinico-omics/preqc-pack already has a lockfile, it will not be regenerated
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.55.0" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] running `Command { std: "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" "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:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+1.55.0" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 8c1a7210e75b49bbac5e80b1acd5b3ebf9f60398c1e5dc4ca53490977ca5eedf
[INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap.
[INFO] running `Command { std: "docker" "start" "-a" "8c1a7210e75b49bbac5e80b1acd5b3ebf9f60398c1e5dc4ca53490977ca5eedf", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "8c1a7210e75b49bbac5e80b1acd5b3ebf9f60398c1e5dc4ca53490977ca5eedf", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "8c1a7210e75b49bbac5e80b1acd5b3ebf9f60398c1e5dc4ca53490977ca5eedf", kill_on_drop: false }`
[INFO] [stdout] 8c1a7210e75b49bbac5e80b1acd5b3ebf9f60398c1e5dc4ca53490977ca5eedf
[INFO] running `Command { std: "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" "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" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+1.55.0" "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] 97374a1e10d1fe4270a464ea1f72f9ee7ea62fa86ac3fe506f29b4dbe6a20cde
[INFO] running `Command { std: "docker" "start" "-a" "97374a1e10d1fe4270a464ea1f72f9ee7ea62fa86ac3fe506f29b4dbe6a20cde", kill_on_drop: false }`
[INFO] [stderr]    Compiling serde v1.0.119
[INFO] [stderr]    Compiling ieee754 v0.2.6
[INFO] [stderr]    Compiling custom_derive v0.1.7
[INFO] [stderr]    Compiling exitcode v1.1.2
[INFO] [stderr]    Compiling fs-utils v1.1.4
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]    Compiling jobserver v0.1.21
[INFO] [stderr]    Compiling atty v0.2.11
[INFO] [stderr]    Compiling time v0.1.44
[INFO] [stderr]    Compiling num_cpus v1.13.0
[INFO] [stderr]    Compiling crossbeam-queue v0.3.1
[INFO] [stderr]    Compiling serde_derive v1.0.119
[INFO] [stderr]    Compiling derive-new v0.5.8
[INFO] [stderr]    Compiling strum_macros v0.20.1
[INFO] [stderr]    Compiling thiserror-impl v1.0.23
[INFO] [stderr]    Compiling crypto-mac v0.8.0
[INFO] [stderr]    Compiling proc-macro-error v1.0.4
[INFO] [stderr]    Compiling md-5 v0.9.1
[INFO] [stderr]    Compiling clap v2.33.3
[INFO] [stderr]    Compiling blake2 v0.9.1
[INFO] [stderr]    Compiling crossbeam v0.8.0
[INFO] [stderr]    Compiling rayon-core v1.9.0
[INFO] [stderr]    Compiling cc v1.0.66
[INFO] [stderr]    Compiling chrono v0.4.19
[INFO] [stderr]    Compiling structopt-derive v0.4.14
[INFO] [stderr]    Compiling cmake v0.1.45
[INFO] [stderr]    Compiling openssl-src v111.13.0+1.1.1i
[INFO] [stderr]    Compiling rayon v1.5.0
[INFO] [stderr]    Compiling stderrlog v0.4.3
[INFO] [stderr]    Compiling libz-sys v1.1.2
[INFO] [stderr]    Compiling openssl-sys v0.9.60
[INFO] [stderr]    Compiling lzma-sys v0.1.17
[INFO] [stderr]    Compiling curl-sys v0.4.39+curl-7.74.0
[INFO] [stderr]    Compiling bzip2-sys v0.1.9+1.0.8
[INFO] [stderr]    Compiling hts-sys v1.10.3
[INFO] [stderr]    Compiling thiserror v1.0.23
[INFO] [stderr]    Compiling bio-types v0.10.0
[INFO] [stderr]    Compiling flate2 v1.0.20
[INFO] [stderr]    Compiling structopt v0.3.21
[INFO] [stderr]    Compiling serde_json v1.0.61
[INFO] [stderr]    Compiling seq_io v0.3.1
[INFO] [stderr]    Compiling rust-htslib v0.32.0
[INFO] [stderr]    Compiling preqc-pack v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unused `#[macro_use]` import
[INFO] [stdout]  --> src/bin/preqc-pack.rs:1:1
[INFO] [stdout]   |
[INFO] [stdout] 1 | #[macro_use]
[INFO] [stdout]   | ^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `#[macro_use]` import
[INFO] [stdout]  --> src/bin/preqc-pack.rs:5:1
[INFO] [stdout]   |
[INFO] [stdout] 5 | #[macro_use]
[INFO] [stdout]   | ^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function is never used: `is_fastq_file`
[INFO] [stdout]   --> src/bin/cmd/merge.rs:24:4
[INFO] [stdout]    |
[INFO] [stdout] 24 | fn is_fastq_file(filepath: &str) -> bool {
[INFO] [stdout]    |    ^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(dead_code)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function is never used: `is_fastq_gz_file`
[INFO] [stdout]   --> src/bin/cmd/merge.rs:33:4
[INFO] [stdout]    |
[INFO] [stdout] 33 | fn is_fastq_gz_file(filepath: &str) -> bool {
[INFO] [stdout]    |    ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 4 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished dev [unoptimized + debuginfo] target(s) in 2m 12s
[INFO] running `Command { std: "docker" "inspect" "97374a1e10d1fe4270a464ea1f72f9ee7ea62fa86ac3fe506f29b4dbe6a20cde", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "97374a1e10d1fe4270a464ea1f72f9ee7ea62fa86ac3fe506f29b4dbe6a20cde", kill_on_drop: false }`
[INFO] [stdout] 97374a1e10d1fe4270a464ea1f72f9ee7ea62fa86ac3fe506f29b4dbe6a20cde
[INFO] running `Command { std: "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" "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" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+1.55.0" "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] 1f7536ea8a98450a4b7862266cd299c1a3d12e83bf42a09a18abdf566a8b1d2f
[INFO] running `Command { std: "docker" "start" "-a" "1f7536ea8a98450a4b7862266cd299c1a3d12e83bf42a09a18abdf566a8b1d2f", kill_on_drop: false }`
[INFO] [stderr]    Compiling preqc-pack v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unused `#[macro_use]` import
[INFO] [stdout]  --> src/bin/preqc-pack.rs:1:1
[INFO] [stdout]   |
[INFO] [stdout] 1 | #[macro_use]
[INFO] [stdout]   | ^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `#[macro_use]` import
[INFO] [stdout]  --> src/bin/preqc-pack.rs:5:1
[INFO] [stdout]   |
[INFO] [stdout] 5 | #[macro_use]
[INFO] [stdout]   | ^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function is never used: `is_fastq_file`
[INFO] [stdout]   --> src/bin/cmd/merge.rs:24:4
[INFO] [stdout]    |
[INFO] [stdout] 24 | fn is_fastq_file(filepath: &str) -> bool {
[INFO] [stdout]    |    ^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(dead_code)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function is never used: `is_fastq_gz_file`
[INFO] [stdout]   --> src/bin/cmd/merge.rs:33:4
[INFO] [stdout]    |
[INFO] [stdout] 33 | fn is_fastq_gz_file(filepath: &str) -> bool {
[INFO] [stdout]    |    ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 4 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished test [unoptimized + debuginfo] target(s) in 3.13s
[INFO] running `Command { std: "docker" "inspect" "1f7536ea8a98450a4b7862266cd299c1a3d12e83bf42a09a18abdf566a8b1d2f", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "1f7536ea8a98450a4b7862266cd299c1a3d12e83bf42a09a18abdf566a8b1d2f", kill_on_drop: false }`
[INFO] [stdout] 1f7536ea8a98450a4b7862266cd299c1a3d12e83bf42a09a18abdf566a8b1d2f
[INFO] running `Command { std: "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" "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" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+1.55.0" "test" "--frozen", kill_on_drop: false }`
[INFO] [stdout] 2e827cdfcecb995ba2d006ea1fb5afe7a4ef87788a94af9c7a4b7a75647aba9f
[INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap.
[INFO] running `Command { std: "docker" "start" "-a" "2e827cdfcecb995ba2d006ea1fb5afe7a4ef87788a94af9c7a4b7a75647aba9f", kill_on_drop: false }`
[INFO] [stderr] warning: unused `#[macro_use]` import
[INFO] [stderr]  --> src/bin/preqc-pack.rs:1:1
[INFO] [stderr]   |
[INFO] [stderr] 1 | #[macro_use]
[INFO] [stderr]   | ^^^^^^^^^^^^
[INFO] [stderr]   |
[INFO] [stderr]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: unused `#[macro_use]` import
[INFO] [stderr]  --> src/bin/preqc-pack.rs:5:1
[INFO] [stderr]   |
[INFO] [stderr] 5 | #[macro_use]
[INFO] [stderr]   | ^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `is_fastq_file`
[INFO] [stderr]   --> src/bin/cmd/merge.rs:24:4
[INFO] [stderr]    |
[INFO] [stderr] 24 | fn is_fastq_file(filepath: &str) -> bool {
[INFO] [stderr]    |    ^^^^^^^^^^^^^
[INFO] [stderr]    |
[INFO] [stderr]    = note: `#[warn(dead_code)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `is_fastq_gz_file`
[INFO] [stderr]   --> src/bin/cmd/merge.rs:33:4
[INFO] [stderr]    |
[INFO] [stderr] 33 | fn is_fastq_gz_file(filepath: &str) -> bool {
[INFO] [stderr]    |    ^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: `preqc-pack` (bin "preqc-pack" test) generated 4 warnings
[INFO] [stderr]     Finished test [unoptimized + debuginfo] target(s) in 0.10s
[INFO] [stdout] 
[INFO] [stderr]      Running unittests (/opt/rustwide/target/debug/deps/preqc_pack-8451801b206d6dae)
[INFO] [stdout] running 0 tests
[INFO] [stderr]      Running unittests (/opt/rustwide/target/debug/deps/preqc_pack-45236a638aeea5a5)
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[INFO] [stderr]    Doc-tests preqc-pack
[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; finished in 0.00s
[INFO] [stdout] 
[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; finished in 0.00s
[INFO] [stdout] 
[INFO] running `Command { std: "docker" "inspect" "2e827cdfcecb995ba2d006ea1fb5afe7a4ef87788a94af9c7a4b7a75647aba9f", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "2e827cdfcecb995ba2d006ea1fb5afe7a4ef87788a94af9c7a4b7a75647aba9f", kill_on_drop: false }`
[INFO] [stdout] 2e827cdfcecb995ba2d006ea1fb5afe7a4ef87788a94af9c7a4b7a75647aba9f