[INFO] cloning repository https://github.com/koisland/rs-cdr-finder
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/koisland/rs-cdr-finder" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fkoisland%2Frs-cdr-finder", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fkoisland%2Frs-cdr-finder'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 7e8b41ddf07f0c03dcc230ef6978935e952f6485
[INFO] testing koisland/rs-cdr-finder against master#2fd6efc32704647e64d3d646d21c4c68eae100e4 for pr-149852-1
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fkoisland%2Frs-cdr-finder" "/workspace/builds/worker-5-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-5-tc1/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/koisland/rs-cdr-finder
[INFO] finished tweaking git repo https://github.com/koisland/rs-cdr-finder
[INFO] tweaked toml for git repo https://github.com/koisland/rs-cdr-finder written to /workspace/builds/worker-5-tc1/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/koisland/rs-cdr-finder on toolchain 2fd6efc32704647e64d3d646d21c4c68eae100e4
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+2fd6efc32704647e64d3d646d21c4c68eae100e4" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/koisland/rs-cdr-finder 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" "+2fd6efc32704647e64d3d646d21c4c68eae100e4" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]     Updating git repository `https://github.com/nanoporetech/modkit.git`
[INFO] [stderr]     Updating git repository `https://github.com/logsdon-lab/rs-moddotplot.git`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded noodles v0.101.0
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[INFO] [stderr]   Downloaded rv v0.16.0
[INFO] [stderr]   Downloaded statrs v0.16.1
[INFO] [stderr]   Downloaded attohttpc v0.25.0
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[INFO] [stderr]   Downloaded bio-types v1.0.4
[INFO] [stderr]   Downloaded ieee754 v0.2.6
[INFO] [stderr]   Downloaded puruspe v0.2.5
[INFO] [stderr]   Downloaded nalgebra v0.29.0
[INFO] [stderr]   Downloaded tracing-appender v0.2.4
[INFO] [stderr]   Downloaded custom_derive v0.1.7
[INFO] [stderr]   Downloaded charming v0.3.1
[INFO] [stderr]   Downloaded newtype_derive v0.1.6
[INFO] [stderr]   Downloaded doc-comment v0.3.4
[INFO] [stderr]   Downloaded peroxide-ad v0.3.0
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[INFO] [stderr]   Downloaded libdeflater v0.13.0
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[INFO] [stderr]   Downloaded common_macros v0.1.1
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[INFO] [stderr]   Downloaded thread-id v5.0.0
[INFO] [stderr]   Downloaded destructure_traitobject v0.2.0
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[INFO] [stderr]   Downloaded noodles-fasta v0.56.0
[INFO] [stderr]   Downloaded noodles-core v0.17.0
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[INFO] [stderr]   Downloaded curl-sys v0.4.84+curl-8.17.0
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[INFO] [stderr]   Downloaded hts-sys v2.2.0
[INFO] [stderr]   Downloaded bigtools v0.5.6
[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:aa71247004a7fa38d13ec170f48f06cdedf5bc50b2a8645e56ed7e992e6fa513" "/opt/rustwide/cargo-home/bin/cargo" "+2fd6efc32704647e64d3d646d21c4c68eae100e4" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] bdad77af50e0e3aaaf0d007bd7ff0584ecbeccc7be26c3f6f6daa4a6899a8a8e
[INFO] running `Command { std: "docker" "start" "-a" "bdad77af50e0e3aaaf0d007bd7ff0584ecbeccc7be26c3f6f6daa4a6899a8a8e", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "bdad77af50e0e3aaaf0d007bd7ff0584ecbeccc7be26c3f6f6daa4a6899a8a8e", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "bdad77af50e0e3aaaf0d007bd7ff0584ecbeccc7be26c3f6f6daa4a6899a8a8e", kill_on_drop: false }`
[INFO] [stdout] bdad77af50e0e3aaaf0d007bd7ff0584ecbeccc7be26c3f6f6daa4a6899a8a8e
[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:aa71247004a7fa38d13ec170f48f06cdedf5bc50b2a8645e56ed7e992e6fa513" "/opt/rustwide/cargo-home/bin/cargo" "+2fd6efc32704647e64d3d646d21c4c68eae100e4" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 0690f61fb45e8e8c76c57c9e0ce9b0a1d00259a5a680a14f07e5eaee945e8553
[INFO] running `Command { std: "docker" "start" "-a" "0690f61fb45e8e8c76c57c9e0ce9b0a1d00259a5a680a14f07e5eaee945e8553", kill_on_drop: false }`
[INFO] [stderr]    Compiling libm v0.2.15
[INFO] [stderr]    Compiling serde_core v1.0.228
[INFO] [stderr]    Compiling num-traits v0.2.19
[INFO] [stderr]    Compiling jobserver v0.1.34
[INFO] [stderr]    Compiling serde v1.0.228
[INFO] [stderr]    Compiling getrandom v0.2.16
[INFO] [stderr]    Compiling crc32fast v1.5.0
[INFO] [stderr]    Compiling zlib-rs v0.5.2
[INFO] [stderr]    Compiling syn v1.0.109
[INFO] [stderr]    Compiling byteorder v1.5.0
[INFO] [stderr]    Compiling bytemuck v1.24.0
[INFO] [stderr]    Compiling cc v1.2.48
[INFO] [stderr]    Compiling miniz_oxide v0.8.9
[INFO] [stderr]    Compiling smallvec v1.15.1
[INFO] [stderr]    Compiling num_cpus v1.17.0
[INFO] [stderr]    Compiling rand_core v0.6.4
[INFO] [stderr]    Compiling thiserror-impl v1.0.69
[INFO] [stderr]    Compiling matrixmultiply v0.3.10
[INFO] [stderr]    Compiling serde_json v1.0.145
[INFO] [stderr]    Compiling rand_chacha v0.3.1
[INFO] [stderr]    Compiling openssl-src v300.5.4+3.5.4
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[INFO] [stderr]    Compiling thread-tree v0.3.3
[INFO] [stderr]    Compiling ring v0.17.14
[INFO] [stderr]    Compiling libz-sys v1.1.23
[INFO] [stderr]    Compiling thiserror v1.0.69
[INFO] [stderr]    Compiling openssl-sys v0.9.111
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[INFO] [stderr]    Compiling rawpointer v0.2.1
[INFO] [stderr]    Compiling rustix v1.1.2
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[INFO] [stderr]    Compiling num-integer v0.1.46
[INFO] [stderr]    Compiling num-complex v0.4.6
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[INFO] [stderr]    Compiling libz-rs-sys v0.5.2
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[INFO] [stderr]    Compiling icu_normalizer v2.1.1
[INFO] [stderr]    Compiling rand v0.8.5
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[INFO] [stderr]    Compiling bstr v1.12.1
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[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]    Compiling idna_adapter v1.2.1
[INFO] [stderr]    Compiling num-rational v0.4.2
[INFO] [stderr]    Compiling bzip2-sys v0.1.13+1.0.8
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[INFO] [stderr]    Compiling tracing-subscriber v0.3.22
[INFO] [stderr]    Compiling serde_yaml v0.9.34+deprecated
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[INFO] [stderr]    Compiling csv v1.4.0
[INFO] [stderr]    Compiling rustls-native-certs v0.6.3
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[INFO] [stderr]    Compiling plotters-backend v0.3.7
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[INFO] [stderr]    Compiling clap v4.5.53
[INFO] [stderr]    Compiling noodles-fasta v0.51.0
[INFO] [stderr]    Compiling lru v0.9.0
[INFO] [stderr]    Compiling pathfinder_geometry v0.5.1
[INFO] [stderr]    Compiling bv v0.11.1
[INFO] [stderr]    Compiling handlebars v4.5.0
[INFO] [stderr]    Compiling futures v0.3.31
[INFO] [stderr]    Compiling libdeflater v0.13.0
[INFO] [stderr]    Compiling term v0.7.0
[INFO] [stderr]    Compiling tracing-appender v0.2.4
[INFO] [stderr]    Compiling dirs v6.0.0
[INFO] [stderr]    Compiling noodles-core v0.18.0
[INFO] [stderr]    Compiling noodles-bgzf v0.43.0
[INFO] [stderr]    Compiling derive-new v0.5.9
[INFO] [stderr]    Compiling bincode v1.3.3
[INFO] [stderr]    Compiling vec_map v0.8.2
[INFO] [stderr]    Compiling multimap v0.9.1
[INFO] [stderr]    Compiling ndarray v0.15.6
[INFO] [stderr]    Compiling ordered-float v3.9.2
[INFO] [stderr]    Compiling itertools-num v0.1.3
[INFO] [stderr]    Compiling tokio v1.48.0
[INFO] [stderr]    Compiling special v0.10.3
[INFO] [stderr]    Compiling core_affinity v0.8.3
[INFO] [stderr]    Compiling itertools v0.10.5
[INFO] [stderr]    Compiling itertools v0.11.0
[INFO] [stderr]    Compiling byteordered v0.6.0
[INFO] [stderr]    Compiling fxhash v0.2.1
[INFO] [stderr]    Compiling crossbeam-queue v0.3.12
[INFO] [stderr]    Compiling is-terminal v0.4.17
[INFO] [stderr]    Compiling number_prefix v0.4.0
[INFO] [stderr]    Compiling linear-map v1.2.0
[INFO] [stderr]    Compiling index_list v0.2.17
[INFO] [stderr]    Compiling bytecount v0.6.9
[INFO] [stderr]    Compiling editdistancek v1.0.2
[INFO] [stderr]    Compiling reborrow v0.5.5
[INFO] [stderr]    Compiling ieee754 v0.2.6
[INFO] [stderr]    Compiling encode_unicode v1.0.0
[INFO] [stderr]    Compiling unicode-width v0.1.14
[INFO] [stderr]    Compiling float-ord v0.3.2
[INFO] [stderr]    Compiling triple_accel v0.4.0
[INFO] [stderr]    Compiling bigtools v0.5.6
[INFO] [stderr]    Compiling prettytable-rs v0.10.0
[INFO] [stderr]    Compiling pulp v0.18.22
[INFO] [stderr]    Compiling indicatif v0.17.11
[INFO] [stderr]    Compiling crossbeam v0.8.4
[INFO] [stderr]    Compiling gzp v0.11.3
[INFO] [stderr]    Compiling rv v0.16.0
[INFO] [stderr]    Compiling noodles-fasta v0.56.0
[INFO] [stderr]    Compiling charming v0.3.1
[INFO] [stderr]    Compiling modkit-logging v0.4.5 (https://github.com/nanoporetech/modkit.git?tag=v0.5.0#5120ef76)
[INFO] [stderr]    Compiling bio v1.6.0
[INFO] [stderr]    Compiling noodles v0.96.0
[INFO] [stderr]    Compiling plotters-bitmap v0.3.7
[INFO] [stderr]    Compiling plotters-svg v0.3.7
[INFO] [stderr]    Compiling random_color v1.1.0
[INFO] [stderr]    Compiling log-once v0.4.1
[INFO] [stderr]    Compiling rust-lapper v1.2.0
[INFO] [stderr]    Compiling itertools v0.12.1
[INFO] [stderr]    Compiling common_macros v0.1.1
[INFO] [stderr]    Compiling ttf-parser v0.20.0
[INFO] [stderr]    Compiling rs-moddotplot v0.1.0 (https://github.com/logsdon-lab/rs-moddotplot.git?rev=e6439eaf7eeeba8702c12e0e4347c2127974d5f6#e6439eaf)
[INFO] [stderr]    Compiling noodles v0.101.0
[INFO] [stderr]    Compiling ordered-float v5.1.0
[INFO] [stderr]    Compiling itertools v0.14.0
[INFO] [stderr]    Compiling find_peaks v0.1.5
[INFO] [stderr]    Compiling plotters v0.3.7
[INFO] [stderr]    Compiling rust-htslib v0.46.0
[INFO] [stderr]    Compiling mod_kit v0.5.0 (https://github.com/nanoporetech/modkit.git?tag=v0.5.0#5120ef76)
[INFO] [stderr] error: could not compile `mod_kit` (lib)
[INFO] [stderr] 
[INFO] [stderr] Caused by:
[INFO] [stderr]   process didn't exit successfully: `/opt/rustwide/rustup-home/toolchains/2fd6efc32704647e64d3d646d21c4c68eae100e4/bin/rustc --crate-name mod_kit --edition=2021 /opt/rustwide/cargo-home/git/checkouts/modkit-ed6dfc7e5f68df23/5120ef7/modkit-core/src/lib.rs --error-format=json --json=diagnostic-rendered-ansi,artifacts,future-incompat --crate-type lib --emit=dep-info,metadata,link -C embed-bitcode=no -C debuginfo=2 --check-cfg 'cfg(docsrs,test)' --check-cfg 'cfg(feature, values())' -C metadata=74c6cc9d1394a3de -C extra-filename=-9f5d75a7b91c7f65 --out-dir /opt/rustwide/target/debug/deps -L dependency=/opt/rustwide/target/debug/deps --extern ansi_term=/opt/rustwide/target/debug/deps/libansi_term-4ffce2d8d1f5d132.rmeta --extern anyhow=/opt/rustwide/target/debug/deps/libanyhow-7e5dcd40304f6dad.rmeta --extern bigtools=/opt/rustwide/target/debug/deps/libbigtools-8215f4fe715988b5.rmeta --extern bio=/opt/rustwide/target/debug/deps/libbio-c4e7d50a6bb67d54.rmeta --extern bitvec=/opt/rustwide/target/debug/deps/libbitvec-7b6d799c6dcd1507.rmeta --extern charming=/opt/rustwide/target/debug/deps/libcharming-18ebb074957d721e.rmeta --extern clap=/opt/rustwide/target/debug/deps/libclap-4b32eb2a73452dec.rmeta --extern common_macros=/opt/rustwide/target/debug/deps/libcommon_macros-027fcc18f2d0da92.rmeta --extern crossbeam=/opt/rustwide/target/debug/deps/libcrossbeam-14cef2cd820c566a.rmeta --extern crossbeam_channel=/opt/rustwide/target/debug/deps/libcrossbeam_channel-54e7071fd9e2348e.rmeta --extern csv=/opt/rustwide/target/debug/deps/libcsv-f98bcfa69ec9a8d9.rmeta --extern derive_new=/opt/rustwide/target/debug/deps/libderive_new-8171db47b84e841f.so --extern gzp=/opt/rustwide/target/debug/deps/libgzp-5f9ad854c1b3950f.rmeta --extern humantime=/opt/rustwide/target/debug/deps/libhumantime-ec1108f343b20094.rmeta --extern indexmap=/opt/rustwide/target/debug/deps/libindexmap-50c87da5001fa587.rmeta --extern indicatif=/opt/rustwide/target/debug/deps/libindicatif-acd188a0fa7abe2a.rmeta --extern itertools=/opt/rustwide/target/debug/deps/libitertools-cda189f5b350378b.rmeta --extern lazy_static=/opt/rustwide/target/debug/deps/liblazy_static-b3603208c0de2608.rmeta --extern linear_map=/opt/rustwide/target/debug/deps/liblinear_map-4e56c30b106c3d59.rmeta --extern log=/opt/rustwide/target/debug/deps/liblog-7641dc4f1527967e.rmeta --extern log_once=/opt/rustwide/target/debug/deps/liblog_once-1a275904a4105d59.rmeta --extern memchr=/opt/rustwide/target/debug/deps/libmemchr-f9c66c7ba21bf873.rmeta --extern modkit_logging=/opt/rustwide/target/debug/deps/libmodkit_logging-7446b147b4e89f0b.rmeta --extern ndarray=/opt/rustwide/target/debug/deps/libndarray-c9145f77ba5f4b82.rmeta --extern nom=/opt/rustwide/target/debug/deps/libnom-7aa949bdde67ff87.rmeta --extern num=/opt/rustwide/target/debug/deps/libnum-98913c292b961b74.rmeta --extern num_traits=/opt/rustwide/target/debug/deps/libnum_traits-10b3a10b7db869ec.rmeta --extern prettytable=/opt/rustwide/target/debug/deps/libprettytable-3962d88dbaffb2b4.rmeta --extern pulp=/opt/rustwide/target/debug/deps/libpulp-645bf080f7cb4d4c.rmeta --extern rand=/opt/rustwide/target/debug/deps/librand-1cec227117283190.rmeta --extern random_color=/opt/rustwide/target/debug/deps/librandom_color-4f5ea4986500ec02.rmeta --extern rayon=/opt/rustwide/target/debug/deps/librayon-3336647a8430f5f6.rmeta --extern regex=/opt/rustwide/target/debug/deps/libregex-661d0e25aefbfd44.rmeta --extern rust_htslib=/opt/rustwide/target/debug/deps/librust_htslib-fb881f14205ca89e.rmeta --extern rust_lapper=/opt/rustwide/target/debug/deps/librust_lapper-3bf3e3dfd751375e.rmeta --extern rustc_hash=/opt/rustwide/target/debug/deps/librustc_hash-5a527483989b35a3.rmeta --extern rv=/opt/rustwide/target/debug/deps/librv-56d697754b2aad3e.rmeta --extern statrs=/opt/rustwide/target/debug/deps/libstatrs-9633a229f01730fc.rmeta --extern substring=/opt/rustwide/target/debug/deps/libsubstring-4dc2d235f9609881.rmeta --extern thiserror=/opt/rustwide/target/debug/deps/libthiserror-5bb14f29ad2876a4.rmeta --extern tokio=/opt/rustwide/target/debug/deps/libtokio-0deeab6228716c8a.rmeta --extern tracing=/opt/rustwide/target/debug/deps/libtracing-af35c14374afcac0.rmeta --cap-lints allow --cap-lints=forbid -L native=/opt/rustwide/target/debug/build/ring-21c58290f18c1331/out -L native=/opt/rustwide/target/debug/build/libdeflate-sys-219325e4ee961f71/out/lib -L native=/opt/rustwide/target/debug/build/hts-sys-a09f1322d3469805/out -L native=/opt/rustwide/target/debug/build/bzip2-sys-cb6a0eddb88aa3c6/out/lib -L native=/opt/rustwide/target/debug/build/curl-sys-ae47b7ffd2cf9626/out/build -L native=/opt/rustwide/target/debug/build/libz-sys-2b60250cad507f3c/out/lib -L native=/opt/rustwide/target/debug/build/libz-sys-2b60250cad507f3c/out/lib -L native=/opt/rustwide/target/debug/build/openssl-sys-a9a38c86eba78964/out/openssl-build/install/lib -L native=/opt/rustwide/target/debug/build/lzma-sys-c4135aa7e445a6e6/out` (signal: 9, SIGKILL: kill)
[INFO] running `Command { std: "docker" "inspect" "0690f61fb45e8e8c76c57c9e0ce9b0a1d00259a5a680a14f07e5eaee945e8553", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "0690f61fb45e8e8c76c57c9e0ce9b0a1d00259a5a680a14f07e5eaee945e8553", kill_on_drop: false }`
[INFO] [stdout] 0690f61fb45e8e8c76c57c9e0ce9b0a1d00259a5a680a14f07e5eaee945e8553