[INFO] cloning repository https://github.com/bioforensics/mhrs [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/bioforensics/mhrs" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbioforensics%2Fmhrs", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbioforensics%2Fmhrs'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 7bb946a0170bba0b2b6212f7eb1dc96e0e3777ec [INFO] testing bioforensics/mhrs against 1.86.0 for beta-1.87-1 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbioforensics%2Fmhrs" "/workspace/builds/worker-5-tc1/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-5-tc1/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/bioforensics/mhrs on toolchain 1.86.0 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.86.0" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/bioforensics/mhrs [INFO] finished tweaking git repo https://github.com/bioforensics/mhrs [INFO] tweaked toml for git repo https://github.com/bioforensics/mhrs written to /workspace/builds/worker-5-tc1/source/Cargo.toml [INFO] crate git repo https://github.com/bioforensics/mhrs 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" "+1.86.0" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded bio-types v1.0.1 [INFO] [stderr] Downloaded hts-sys v2.1.1 [INFO] [stderr] Downloaded openssl-src v300.2.3+3.2.1 [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:b0b074c097205a61b89e8ad263052f976b2b332c4dc5f02aef1fe52501660d6e" "/opt/rustwide/cargo-home/bin/cargo" "+1.86.0" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 986e2050d50e97ed94ff0c55e54d88df89f087c8703cf0c65d2d85feaf752bec [INFO] running `Command { std: "docker" "start" "-a" "986e2050d50e97ed94ff0c55e54d88df89f087c8703cf0c65d2d85feaf752bec", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "986e2050d50e97ed94ff0c55e54d88df89f087c8703cf0c65d2d85feaf752bec", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "986e2050d50e97ed94ff0c55e54d88df89f087c8703cf0c65d2d85feaf752bec", kill_on_drop: false }` [INFO] [stdout] 986e2050d50e97ed94ff0c55e54d88df89f087c8703cf0c65d2d85feaf752bec [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=warn" "-e" "RUSTDOCFLAGS=--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:b0b074c097205a61b89e8ad263052f976b2b332c4dc5f02aef1fe52501660d6e" "/opt/rustwide/cargo-home/bin/cargo" "+1.86.0" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 68b644ecebb0c1cb0009039c7e368072632da7edef2f55da1fba5ef77f58dbcd [INFO] running `Command { std: "docker" "start" "-a" "68b644ecebb0c1cb0009039c7e368072632da7edef2f55da1fba5ef77f58dbcd", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro2 v1.0.78 [INFO] [stderr] Compiling unicode-ident v1.0.12 [INFO] [stderr] Compiling libc v0.2.153 [INFO] [stderr] Compiling pkg-config v0.3.30 [INFO] [stderr] Compiling stable_deref_trait v1.2.0 [INFO] [stderr] Compiling vcpkg v0.2.15 [INFO] [stderr] Compiling memchr v2.7.1 [INFO] [stderr] Compiling icu_locid_transform_data v1.5.1 [INFO] [stderr] Compiling writeable v0.5.5 [INFO] [stderr] Compiling litemap v0.7.5 [INFO] [stderr] Compiling icu_properties_data v1.5.1 [INFO] [stderr] Compiling rustversion v1.0.14 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling icu_normalizer_data v1.5.1 [INFO] [stderr] Compiling quick-error v1.2.3 [INFO] [stderr] Compiling tinyvec_macros v0.1.1 [INFO] [stderr] Compiling syn v1.0.109 [INFO] [stderr] Compiling fs-utils v1.1.4 [INFO] [stderr] Compiling tinyvec v1.6.0 [INFO] [stderr] Compiling glob v0.3.1 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Compiling autocfg v1.1.0 [INFO] [stderr] Compiling utf8parse v0.2.2 [INFO] [stderr] Compiling regex-syntax v0.8.2 [INFO] [stderr] Compiling serde v1.0.197 [INFO] [stderr] Compiling thiserror v1.0.57 [INFO] [stderr] Compiling anstyle-parse v0.2.6 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling heck v0.4.1 [INFO] [stderr] Compiling anstyle-query v1.1.1 [INFO] [stderr] Compiling is_terminal_polyfill v1.70.1 [INFO] [stderr] Compiling percent-encoding v2.3.1 [INFO] [stderr] Compiling smallvec v1.15.0 [INFO] [stderr] Compiling colorchoice v1.0.3 [INFO] [stderr] Compiling unicode-bidi v0.3.15 [INFO] [stderr] Compiling num-traits v0.2.18 [INFO] [stderr] Compiling utf16_iter v1.0.5 [INFO] [stderr] Compiling anstyle v1.0.10 [INFO] [stderr] Compiling utf8_iter v1.0.4 [INFO] [stderr] Compiling write16 v1.0.0 [INFO] [stderr] Compiling quote v1.0.35 [INFO] [stderr] Compiling form_urlencoded v1.2.1 [INFO] [stderr] Compiling clap_lex v0.7.4 [INFO] [stderr] Compiling strsim v0.11.1 [INFO] [stderr] Compiling lazy_static v1.4.0 [INFO] [stderr] Compiling serde_json v1.0.140 [INFO] [stderr] Compiling heck v0.5.0 [INFO] [stderr] Compiling syn v2.0.52 [INFO] [stderr] Compiling ryu v1.0.17 [INFO] [stderr] Compiling aho-corasick v1.1.2 [INFO] [stderr] Compiling jobserver v0.1.28 [INFO] [stderr] Compiling unicode-normalization v0.1.23 [INFO] [stderr] Compiling anstream v0.6.15 [INFO] [stderr] Compiling itoa v1.0.10 [INFO] [stderr] Compiling csv-core v0.1.11 [INFO] [stderr] Compiling ieee754 v0.2.6 [INFO] [stderr] Compiling either v1.10.0 [INFO] [stderr] Compiling byteorder v1.5.0 [INFO] [stderr] Compiling linear-map v1.2.0 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling itertools v0.10.5 [INFO] [stderr] Compiling cc v1.0.89 [INFO] [stderr] Compiling clap_builder v4.5.35 [INFO] [stderr] Compiling idna v0.5.0 [INFO] [stderr] Compiling counter v0.5.7 [INFO] [stderr] Compiling url v2.5.0 [INFO] [stderr] Compiling openssl-src v300.2.3+3.2.1 [INFO] [stderr] Compiling cmake v0.1.50 [INFO] [stderr] Compiling regex-automata v0.4.6 [INFO] [stderr] Compiling lzma-sys v0.1.20 [INFO] [stderr] Compiling bzip2-sys v0.1.11+1.0.8 [INFO] [stderr] Compiling curl-sys v0.4.72+curl-8.6.0 [INFO] [stderr] Compiling hts-sys v2.1.1 [INFO] [stderr] Compiling openssl-sys v0.9.101 [INFO] [stderr] Compiling libz-sys v1.1.15 [INFO] [stderr] Compiling derive-new v0.5.9 [INFO] [stderr] Compiling synstructure v0.13.1 [INFO] [stderr] Compiling regex v1.10.3 [INFO] [stderr] Compiling zerovec-derive v0.10.3 [INFO] [stderr] Compiling displaydoc v0.2.5 [INFO] [stderr] Compiling icu_provider_macros v1.5.0 [INFO] [stderr] Compiling serde_derive v1.0.197 [INFO] [stderr] Compiling thiserror-impl v1.0.57 [INFO] [stderr] Compiling strum_macros v0.25.3 [INFO] [stderr] Compiling clap_derive v4.5.32 [INFO] [stderr] Compiling zerofrom-derive v0.1.6 [INFO] [stderr] Compiling yoke-derive v0.7.5 [INFO] [stderr] Compiling clap v4.5.35 [INFO] [stderr] Compiling bio-types v1.0.1 [INFO] [stderr] Compiling zerofrom v0.1.6 [INFO] [stderr] Compiling yoke v0.7.5 [INFO] [stderr] Compiling zerovec v0.10.4 [INFO] [stderr] Compiling tinystr v0.7.6 [INFO] [stderr] Compiling icu_collections v1.5.0 [INFO] [stderr] Compiling icu_locid v1.5.0 [INFO] [stderr] Compiling icu_provider v1.5.0 [INFO] [stderr] Compiling icu_locid_transform v1.5.0 [INFO] [stderr] Compiling icu_properties v1.5.1 [INFO] [stderr] Compiling csv v1.3.0 [INFO] [stderr] Compiling icu_normalizer v1.5.0 [INFO] [stderr] Compiling idna_adapter v1.2.0 [INFO] [stderr] Compiling idna v1.0.3 [INFO] [stderr] Compiling rust-htslib v0.46.0 [INFO] [stderr] Compiling mhrs v0.1.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 2m 46s [INFO] running `Command { std: "docker" "inspect" "68b644ecebb0c1cb0009039c7e368072632da7edef2f55da1fba5ef77f58dbcd", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "68b644ecebb0c1cb0009039c7e368072632da7edef2f55da1fba5ef77f58dbcd", kill_on_drop: false }` [INFO] [stdout] 68b644ecebb0c1cb0009039c7e368072632da7edef2f55da1fba5ef77f58dbcd [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=warn" "-e" "RUSTDOCFLAGS=--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:b0b074c097205a61b89e8ad263052f976b2b332c4dc5f02aef1fe52501660d6e" "/opt/rustwide/cargo-home/bin/cargo" "+1.86.0" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 51d3663e374e1f45d396439f002742c00db8f7d1fe8b80a16d8ecb580aa6af1b [INFO] running `Command { std: "docker" "start" "-a" "51d3663e374e1f45d396439f002742c00db8f7d1fe8b80a16d8ecb580aa6af1b", kill_on_drop: false }` [INFO] [stderr] Compiling mhrs v0.1.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 3.87s [INFO] running `Command { std: "docker" "inspect" "51d3663e374e1f45d396439f002742c00db8f7d1fe8b80a16d8ecb580aa6af1b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "51d3663e374e1f45d396439f002742c00db8f7d1fe8b80a16d8ecb580aa6af1b", kill_on_drop: false }` [INFO] [stdout] 51d3663e374e1f45d396439f002742c00db8f7d1fe8b80a16d8ecb580aa6af1b [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=warn" "-e" "RUSTDOCFLAGS=--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:b0b074c097205a61b89e8ad263052f976b2b332c4dc5f02aef1fe52501660d6e" "/opt/rustwide/cargo-home/bin/cargo" "+1.86.0" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] 27ca58eb496090222441f445d87ef47353f863f632b6b2a2ff58954fc95b04a7 [INFO] running `Command { std: "docker" "start" "-a" "27ca58eb496090222441f445d87ef47353f863f632b6b2a2ff58954fc95b04a7", kill_on_drop: false }` [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.11s [INFO] [stderr] Running unittests src/main.rs (/opt/rustwide/target/debug/deps/mhrs-d122bf8a4ea20f0a) [INFO] [stdout] [INFO] [stdout] running 27 tests [INFO] [stdout] test caller::tests::test_typing_basic ... ok [INFO] [stdout] test definition::tests::test_coordinates ... ok [INFO] [stdout] test cli::tests::test_cli_defaults ... ok [INFO] [stdout] test definition::tests::test_definition_construct_from_vector ... ok [INFO] [stdout] test definition::tests::test_definition_basic ... ok [INFO] [stdout] test observer::tests::test_observer_basic ... ok [INFO] [stdout] test parameters::tests::test_typing_parameters_csv ... ok [INFO] [stdout] test parameters::tests::test_typing_parameters_defaults ... ok [INFO] [stdout] test panel::tests::test_panel_basic ... ok [INFO] [stdout] test profile::tests::test_profile_basic ... ok [INFO] [stdout] test profile::tests::test_profile_json ... ok [INFO] [stdout] test read::tests::test_readhap_serialize ... ok [INFO] [stdout] test read::tests::test_readhap_inequality ... ok [INFO] [stdout] test result::tests::test_typing_result_json ... ok [INFO] [stdout] test panel::tests::test_panel_iter ... ok [INFO] [stdout] test parameters::tests::test_typing_parameters_basic ... ok [INFO] [stdout] test read::tests::test_readhap_equality ... ok [INFO] [stdout] test result::tests::test_typing_result_basic ... ok [INFO] [stdout] test thresholds::tests::test_analytical_threshold ... ok [INFO] [stdout] test read::tests::test_readhap_sort ... ok [INFO] [stdout] test read::tests::test_readhap_from_string ... ok [INFO] [stdout] test read::tests::test_readhap_basic ... ok [INFO] [stdout] test thresholds::tests::test_detection_threshold ... ok [INFO] [stdout] test observer::tests::test_observer_set_all_length_mismatch - should panic ... ok [INFO] [stdout] test read::tests::test_readhap_seq_bad_index - should panic ... ok [INFO] [stdout] test observer::tests::test_observer_set_bad_offset - should panic ... ok [INFO] [stdout] test analyzer::tests::test_analyzer ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 27 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.49s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "27ca58eb496090222441f445d87ef47353f863f632b6b2a2ff58954fc95b04a7", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "27ca58eb496090222441f445d87ef47353f863f632b6b2a2ff58954fc95b04a7", kill_on_drop: false }` [INFO] [stdout] 27ca58eb496090222441f445d87ef47353f863f632b6b2a2ff58954fc95b04a7