[INFO] fetching crate omics-tools 0.1.0... [INFO] testing omics-tools-0.1.0 against master#cdb45c87e2cd43495379f7e867e3cc15dcee9f93 for pr-145838-1 [INFO] extracting crate omics-tools 0.1.0 into /workspace/builds/worker-5-tc1/source [INFO] started tweaking crates.io crate omics-tools 0.1.0 [INFO] finished tweaking crates.io crate omics-tools 0.1.0 [INFO] tweaked toml for crates.io crate omics-tools 0.1.0 written to /workspace/builds/worker-5-tc1/source/Cargo.toml [INFO] validating manifest of crates.io crate omics-tools 0.1.0 on toolchain cdb45c87e2cd43495379f7e867e3cc15dcee9f93 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+cdb45c87e2cd43495379f7e867e3cc15dcee9f93" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate crates.io crate omics-tools 0.1.0 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" "+cdb45c87e2cd43495379f7e867e3cc15dcee9f93" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded termion v1.5.5 [INFO] [stderr] Downloaded bio-types v0.7.0 [INFO] [stderr] Downloaded rust-htslib v0.32.0 [INFO] [stderr] Downloaded bzip2-sys v0.1.9+1.0.8 [INFO] [stderr] Downloaded lzma-sys v0.1.16 [INFO] [stderr] Downloaded hts-sys v1.10.3 [INFO] [stderr] Downloaded curl-sys v0.4.36+curl-7.71.1 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-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@sha256:7ad1b28ee6f5f7f699f6cf7015098d6ccdd96d6f2d78dd06228f5b4c9faf309c" "/opt/rustwide/cargo-home/bin/cargo" "+cdb45c87e2cd43495379f7e867e3cc15dcee9f93" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 97669d9b021606bb85a3bd54603097286333b8ec71eaffd9bf936351ac8b891d [INFO] running `Command { std: "docker" "start" "-a" "97669d9b021606bb85a3bd54603097286333b8ec71eaffd9bf936351ac8b891d", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "97669d9b021606bb85a3bd54603097286333b8ec71eaffd9bf936351ac8b891d", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "97669d9b021606bb85a3bd54603097286333b8ec71eaffd9bf936351ac8b891d", kill_on_drop: false }` [INFO] [stdout] 97669d9b021606bb85a3bd54603097286333b8ec71eaffd9bf936351ac8b891d [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-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@sha256:7ad1b28ee6f5f7f699f6cf7015098d6ccdd96d6f2d78dd06228f5b4c9faf309c" "/opt/rustwide/cargo-home/bin/cargo" "+cdb45c87e2cd43495379f7e867e3cc15dcee9f93" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 826c35265afc11e99330df8fac5af9ebfd6d71a693c725defbfe88aa90dafc47 [INFO] running `Command { std: "docker" "start" "-a" "826c35265afc11e99330df8fac5af9ebfd6d71a693c725defbfe88aa90dafc47", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.77 [INFO] [stderr] Compiling autocfg v1.0.1 [INFO] [stderr] Compiling pkg-config v0.3.18 [INFO] [stderr] Compiling proc-macro2 v1.0.21 [INFO] [stderr] Compiling unicode-xid v0.2.1 [INFO] [stderr] Compiling syn v1.0.40 [INFO] [stderr] Compiling version_check v0.9.2 [INFO] [stderr] Compiling memchr v2.3.3 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling serde v1.0.116 [INFO] [stderr] Compiling tinyvec v0.3.4 [INFO] [stderr] Compiling fs-utils v1.1.4 [INFO] [stderr] Compiling glob v0.3.0 [INFO] [stderr] Compiling bitflags v1.2.1 [INFO] [stderr] Compiling rayon-core v1.8.0 [INFO] [stderr] Compiling serde_derive v1.0.116 [INFO] [stderr] Compiling thread_local v1.0.1 [INFO] [stderr] Compiling log v0.4.11 [INFO] [stderr] Compiling unicode-width v0.1.8 [INFO] [stderr] Compiling unicode-segmentation v1.6.0 [INFO] [stderr] Compiling regex-syntax v0.6.18 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Compiling unicode-normalization v0.1.13 [INFO] [stderr] Compiling textwrap v0.11.0 [INFO] [stderr] Compiling lazy_static v0.2.11 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling proc-macro-error-attr v1.0.4 [INFO] [stderr] Compiling proc-macro-error v1.0.4 [INFO] [stderr] Compiling either v1.6.0 [INFO] [stderr] Compiling heck v0.3.1 [INFO] [stderr] Compiling crossbeam-utils v0.7.2 [INFO] [stderr] Compiling memoffset v0.5.5 [INFO] [stderr] Compiling crossbeam-epoch v0.8.2 [INFO] [stderr] Compiling num-traits v0.2.12 [INFO] [stderr] Compiling num-integer v0.1.43 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling aho-corasick v0.7.13 [INFO] [stderr] Compiling rayon v1.4.0 [INFO] [stderr] Compiling jobserver v0.1.21 [INFO] [stderr] Compiling atty v0.2.11 [INFO] [stderr] Compiling num_cpus v1.13.0 [INFO] [stderr] Compiling quote v1.0.7 [INFO] [stderr] Compiling time v0.1.44 [INFO] [stderr] Compiling clap v2.33.3 [INFO] [stderr] Compiling thread_local v0.3.4 [INFO] [stderr] Compiling linear-map v1.2.0 [INFO] [stderr] Compiling cc v1.0.59 [INFO] [stderr] Compiling termcolor v1.1.0 [INFO] [stderr] Compiling ieee754 v0.2.6 [INFO] [stderr] Compiling idna v0.2.0 [INFO] [stderr] Compiling exitcode v1.1.2 [INFO] [stderr] Compiling openssl-src v111.10.2+1.1.1g [INFO] [stderr] Compiling crossbeam-channel v0.4.4 [INFO] [stderr] Compiling libz-sys v1.1.2 [INFO] [stderr] Compiling bzip2-sys v0.1.9+1.0.8 [INFO] [stderr] Compiling curl-sys v0.4.36+curl-7.71.1 [INFO] [stderr] Compiling lzma-sys v0.1.16 [INFO] [stderr] Compiling hts-sys v1.10.3 [INFO] [stderr] Compiling openssl-sys v0.9.58 [INFO] [stderr] Compiling url v2.1.1 [INFO] [stderr] Compiling crossbeam-deque v0.7.3 [INFO] [stderr] Compiling regex v1.3.9 [INFO] [stderr] Compiling chrono v0.4.15 [INFO] [stderr] Compiling stderrlog v0.4.3 [INFO] [stderr] Compiling thiserror-impl v1.0.20 [INFO] [stderr] Compiling derive-new v0.5.8 [INFO] [stderr] Compiling structopt-derive v0.4.10 [INFO] [stderr] Compiling thiserror v1.0.20 [INFO] [stderr] Compiling structopt v0.3.17 [INFO] [stderr] Compiling bio-types v0.7.0 [INFO] [stderr] Compiling rust-htslib v0.32.0 [INFO] [stderr] Compiling omics-tools v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused `#[macro_use]` import [INFO] [stdout] --> src/bin/bam-util.rs:1:1 [INFO] [stdout] | [INFO] [stdout] 1 | #[macro_use] [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: struct `Opt` is never constructed [INFO] [stdout] --> src/bin/bam-util.rs:14:8 [INFO] [stdout] | [INFO] [stdout] 14 | struct Opt { [INFO] [stdout] | ^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 1m 10s [INFO] running `Command { std: "docker" "inspect" "826c35265afc11e99330df8fac5af9ebfd6d71a693c725defbfe88aa90dafc47", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "826c35265afc11e99330df8fac5af9ebfd6d71a693c725defbfe88aa90dafc47", kill_on_drop: false }` [INFO] [stdout] 826c35265afc11e99330df8fac5af9ebfd6d71a693c725defbfe88aa90dafc47 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-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@sha256:7ad1b28ee6f5f7f699f6cf7015098d6ccdd96d6f2d78dd06228f5b4c9faf309c" "/opt/rustwide/cargo-home/bin/cargo" "+cdb45c87e2cd43495379f7e867e3cc15dcee9f93" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 84944f04f855ec6048c6ca89d09371fce57f36d338e2e657deeb5495d4413a84 [INFO] running `Command { std: "docker" "start" "-a" "84944f04f855ec6048c6ca89d09371fce57f36d338e2e657deeb5495d4413a84", kill_on_drop: false }` [INFO] [stderr] Compiling omics-tools v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused `#[macro_use]` import [INFO] [stdout] --> src/bin/bam-util.rs:1:1 [INFO] [stdout] | [INFO] [stdout] 1 | #[macro_use] [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: struct `Opt` is never constructed [INFO] [stdout] --> src/bin/bam-util.rs:14:8 [INFO] [stdout] | [INFO] [stdout] 14 | struct Opt { [INFO] [stdout] | ^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.77s [INFO] running `Command { std: "docker" "inspect" "84944f04f855ec6048c6ca89d09371fce57f36d338e2e657deeb5495d4413a84", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "84944f04f855ec6048c6ca89d09371fce57f36d338e2e657deeb5495d4413a84", kill_on_drop: false }` [INFO] [stdout] 84944f04f855ec6048c6ca89d09371fce57f36d338e2e657deeb5495d4413a84 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-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@sha256:7ad1b28ee6f5f7f699f6cf7015098d6ccdd96d6f2d78dd06228f5b4c9faf309c" "/opt/rustwide/cargo-home/bin/cargo" "+cdb45c87e2cd43495379f7e867e3cc15dcee9f93" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] 2ce37ea8776fbe12f1ec36468f1951b4839bf08e045c0c2d1f1102138fc8bb1a [INFO] running `Command { std: "docker" "start" "-a" "2ce37ea8776fbe12f1ec36468f1951b4839bf08e045c0c2d1f1102138fc8bb1a", kill_on_drop: false }` [INFO] [stderr] warning: unused `#[macro_use]` import [INFO] [stderr] --> src/bin/bam-util.rs:1:1 [INFO] [stderr] | [INFO] [stderr] 1 | #[macro_use] [INFO] [stderr] | ^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default [INFO] [stderr] [INFO] [stderr] warning: struct `Opt` is never constructed [INFO] [stderr] --> src/bin/bam-util.rs:14:8 [INFO] [stderr] | [INFO] [stderr] 14 | struct Opt { [INFO] [stderr] | ^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default [INFO] [stderr] [INFO] [stderr] warning: `omics-tools` (bin "bam-util" test) generated 2 warnings [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.17s [INFO] [stderr] Running unittests src/lib.rs (/opt/rustwide/target/debug/deps/omics_tools-cdfcfc16c4f6914f) [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] [stderr] Running unittests src/bin/bam-util.rs (/opt/rustwide/target/debug/deps/bam_util-c2285e0fae220284) [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] [stderr] Doc-tests omics_tools [INFO] [stdout] [INFO] [stdout] running 1 test [INFO] [stdout] test src/bam/cigar.rs - bam::cigar::remove_whitespace (line 21) ... FAILED [INFO] [stdout] [INFO] [stdout] failures: [INFO] [stdout] [INFO] [stdout] ---- src/bam/cigar.rs - bam::cigar::remove_whitespace (line 21) stdout ---- [INFO] [stdout] error[E0425]: cannot find function `remove_whitespace` in this scope [INFO] [stdout] --> src/bam/cigar.rs:22:15 [INFO] [stdout] | [INFO] [stdout] 3 | let removed = remove_whitespace(" each(S) && all(M)"); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ not found in this scope [INFO] [stdout] | [INFO] [stdout] help: consider importing this function [INFO] [stdout] | [INFO] [stdout] 2 + use omics_tools::bam::cigar::remove_whitespace; [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] error: aborting due to 1 previous error [INFO] [stdout] [INFO] [stdout] For more information about this error, try `rustc --explain E0425`. [INFO] [stdout] Couldn't compile the test. [INFO] [stdout] [INFO] [stdout] failures: [INFO] [stdout] src/bam/cigar.rs - bam::cigar::remove_whitespace (line 21) [INFO] [stdout] [INFO] [stdout] test result: FAILED. 0 passed; 1 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.11s [INFO] [stdout] [INFO] [stderr] error: doctest failed, to rerun pass `--doc` [INFO] running `Command { std: "docker" "inspect" "2ce37ea8776fbe12f1ec36468f1951b4839bf08e045c0c2d1f1102138fc8bb1a", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "2ce37ea8776fbe12f1ec36468f1951b4839bf08e045c0c2d1f1102138fc8bb1a", kill_on_drop: false }` [INFO] [stdout] 2ce37ea8776fbe12f1ec36468f1951b4839bf08e045c0c2d1f1102138fc8bb1a