[INFO] fetching crate rustybam 0.1.3...
[INFO] testing rustybam-0.1.3 against 1.54.0 for beta-1.55-1
[INFO] extracting crate rustybam 0.1.3 into /workspace/builds/worker-28/source
[INFO] validating manifest of crates.io crate rustybam 0.1.3 on toolchain 1.54.0
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.54.0" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking crates.io crate rustybam 0.1.3
[INFO] finished tweaking crates.io crate rustybam 0.1.3
[INFO] tweaked toml for crates.io crate rustybam 0.1.3 written to /workspace/builds/worker-28/source/Cargo.toml
[INFO] crate crates.io crate rustybam 0.1.3 already has a lockfile, it will not be regenerated
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.54.0" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded bimap v0.6.1
[INFO] [stderr]   Downloaded derefable v0.1.0
[INFO] [stderr]   Downloaded calmio_filters v0.1.0
[INFO] [stderr]   Downloaded clap_generate v3.0.0-beta.2
[INFO] [stderr]   Downloaded bio-types v0.12.0
[INFO] [stderr]   Downloaded rust-htslib v0.36.0
[INFO] [stderr]   Downloaded bio v0.34.0
[INFO] [stderr]   Downloaded calm_io v0.1.1
[INFO] [stderr]   Downloaded curl-sys v0.4.44+curl-7.77.0
[INFO] [stderr]   Downloaded hts-sys v1.11.1-fix2
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-28/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-28/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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+1.54.0" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 41cd0ce374b736cdd04128e7e1f5ce4b83baca1b74fbee1b1e747fc93fb5a88a
[INFO] running `Command { std: "docker" "start" "-a" "41cd0ce374b736cdd04128e7e1f5ce4b83baca1b74fbee1b1e747fc93fb5a88a", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "41cd0ce374b736cdd04128e7e1f5ce4b83baca1b74fbee1b1e747fc93fb5a88a", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "41cd0ce374b736cdd04128e7e1f5ce4b83baca1b74fbee1b1e747fc93fb5a88a", kill_on_drop: false }`
[INFO] [stdout] 41cd0ce374b736cdd04128e7e1f5ce4b83baca1b74fbee1b1e747fc93fb5a88a
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-28/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-28/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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+1.54.0" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 5d11c092c800f18b2b5798c5a73ea76c2edc4c3a0c9f783bc09f5048651da88c
[INFO] running `Command { std: "docker" "start" "-a" "5d11c092c800f18b2b5798c5a73ea76c2edc4c3a0c9f783bc09f5048651da88c", kill_on_drop: false }`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]    Compiling proc-macro2 v1.0.27
[INFO] [stderr]    Compiling pkg-config v0.3.19
[INFO] [stderr]    Compiling libm v0.2.1
[INFO] [stderr]    Compiling getrandom v0.1.16
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[INFO] [stderr]    Compiling proc-macro2 v0.4.30
[INFO] [stderr]    Compiling semver v0.1.20
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[INFO] [stderr]    Compiling rawpointer v0.2.1
[INFO] [stderr]    Compiling matches v0.1.8
[INFO] [stderr]    Compiling unicode-xid v0.1.0
[INFO] [stderr]    Compiling tinyvec_macros v0.1.0
[INFO] [stderr]    Compiling quick-error v1.2.3
[INFO] [stderr]    Compiling feature-probe v0.1.1
[INFO] [stderr]    Compiling glob v0.3.0
[INFO] [stderr]    Compiling rayon-core v1.9.1
[INFO] [stderr]    Compiling scopeguard v1.1.0
[INFO] [stderr]    Compiling syn v0.15.44
[INFO] [stderr]    Compiling either v1.6.1
[INFO] [stderr]    Compiling regex-automata v0.1.10
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[INFO] [stderr]    Compiling ndarray v0.14.0
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[INFO] [stderr]    Compiling bio v0.34.0
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[INFO] [stderr]    Compiling fxhash v0.2.1
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]    Compiling itertools v0.9.0
[INFO] [stderr]    Compiling petgraph v0.5.1
[INFO] [stderr]    Compiling itertools v0.10.1
[INFO] [stderr]    Compiling tinyvec v1.2.0
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[INFO] [stderr]    Compiling colored v2.0.0
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[INFO] [stderr]    Compiling cc v1.0.69
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[INFO] [stderr]    Compiling fs-utils v1.1.4
[INFO] [stderr]    Compiling rand_core v0.5.1
[INFO] [stderr]    Compiling openssl-src v111.15.0+1.1.1k
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]    Compiling crossbeam-channel v0.5.1
[INFO] [stderr]    Compiling quote v1.0.9
[INFO] [stderr]    Compiling rand_chacha v0.2.2
[INFO] [stderr]    Compiling unicode-normalization v0.1.19
[INFO] [stderr]    Compiling syn v1.0.73
[INFO] [stderr]    Compiling quote v0.6.13
[INFO] [stderr]    Compiling rand v0.7.3
[INFO] [stderr]    Compiling libz-sys v1.1.3
[INFO] [stderr]    Compiling openssl-sys v0.9.65
[INFO] [stderr]    Compiling curl-sys v0.4.44+curl-7.77.0
[INFO] [stderr]    Compiling bzip2-sys v0.1.11+1.0.8
[INFO] [stderr]    Compiling lzma-sys v0.1.17
[INFO] [stderr]    Compiling hts-sys v1.11.1-fix2
[INFO] [stderr]    Compiling generic-array v0.13.3
[INFO] [stderr]    Compiling proc-macro-error-attr v1.0.4
[INFO] [stderr]    Compiling crossbeam-deque v0.8.0
[INFO] [stderr]    Compiling approx v0.3.2
[INFO] [stderr]    Compiling num-complex v0.3.1
[INFO] [stderr]    Compiling itertools-num v0.1.3
[INFO] [stderr]    Compiling ordered-float v1.1.1
[INFO] [stderr]    Compiling rand_distr v0.2.2
[INFO] [stderr]    Compiling idna v0.2.3
[INFO] [stderr]    Compiling alga v0.9.3
[INFO] [stderr]    Compiling url v2.2.2
[INFO] [stderr]    Compiling nalgebra v0.19.0
[INFO] [stderr]    Compiling derefable v0.1.0
[INFO] [stderr]    Compiling proc-macro-error v1.0.4
[INFO] [stderr]    Compiling serde_derive v1.0.126
[INFO] [stderr]    Compiling clap_derive v3.0.0-beta.2
[INFO] [stderr]    Compiling thiserror-impl v1.0.26
[INFO] [stderr]    Compiling derive-new v0.5.9
[INFO] [stderr]    Compiling strum_macros v0.20.1
[INFO] [stderr]    Compiling enum-map-derive v0.4.6
[INFO] [stderr]    Compiling calmio_filters v0.1.0
[INFO] [stderr]    Compiling getset v0.0.9
[INFO] [stderr]    Compiling enum-map v0.6.4
[INFO] [stderr]    Compiling calm_io v0.1.1
[INFO] [stderr]    Compiling thiserror v1.0.26
[INFO] [stderr]    Compiling bio-types v0.12.0
[INFO] [stderr]    Compiling serde v1.0.126
[INFO] [stderr]    Compiling statrs v0.13.0
[INFO] [stderr]    Compiling vec_map v0.8.2
[INFO] [stderr]    Compiling bstr v0.2.16
[INFO] [stderr]    Compiling multimap v0.8.3
[INFO] [stderr]    Compiling clap v3.0.0-beta.2
[INFO] [stderr]    Compiling csv v1.1.6
[INFO] [stderr]    Compiling clap_generate v3.0.0-beta.2
[INFO] [stderr]    Compiling rustybam v0.1.3 (/opt/rustwide/workdir)
[INFO] [stderr]    Compiling rust-htslib v0.36.0
[INFO] [stderr]     Finished dev [unoptimized + debuginfo] target(s) in 52.59s
[INFO] running `Command { std: "docker" "inspect" "5d11c092c800f18b2b5798c5a73ea76c2edc4c3a0c9f783bc09f5048651da88c", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "5d11c092c800f18b2b5798c5a73ea76c2edc4c3a0c9f783bc09f5048651da88c", kill_on_drop: false }`
[INFO] [stdout] 5d11c092c800f18b2b5798c5a73ea76c2edc4c3a0c9f783bc09f5048651da88c
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-28/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-28/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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+1.54.0" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] f10573bbe937934f923489b85eefc4cbb3bb13ee9ec59e06f75d3caeb61c080d
[INFO] running `Command { std: "docker" "start" "-a" "f10573bbe937934f923489b85eefc4cbb3bb13ee9ec59e06f75d3caeb61c080d", kill_on_drop: false }`
[INFO] [stderr]    Compiling rustybam v0.1.3 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished test [unoptimized + debuginfo] target(s) in 4.58s
[INFO] running `Command { std: "docker" "inspect" "f10573bbe937934f923489b85eefc4cbb3bb13ee9ec59e06f75d3caeb61c080d", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "f10573bbe937934f923489b85eefc4cbb3bb13ee9ec59e06f75d3caeb61c080d", kill_on_drop: false }`
[INFO] [stdout] f10573bbe937934f923489b85eefc4cbb3bb13ee9ec59e06f75d3caeb61c080d
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-28/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-28/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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+1.54.0" "test" "--frozen", kill_on_drop: false }`
[INFO] [stdout] 99906ff2005dc2232f0d7868b7fa3c41d6133912692b6a63cb6585f20d4c4cf0
[INFO] running `Command { std: "docker" "start" "-a" "99906ff2005dc2232f0d7868b7fa3c41d6133912692b6a63cb6585f20d4c4cf0", kill_on_drop: false }`
[INFO] [stderr]     Finished test [unoptimized + debuginfo] target(s) in 0.09s
[INFO] [stderr]      Running unittests (/opt/rustwide/target/debug/deps/rustybam-f4a540ba9af378e2)
[INFO] [stdout] 
[INFO] [stdout] running 6 tests
[INFO] [stdout] test liftover::tests::check_invertible ... ok
[INFO] [stdout] test suns::tests::test_convert ... ok
[INFO] [stdout] test suns::tests::test_sun_finding ... ok
[INFO] [stdout] test liftover::tests::test_aln_pair_liftover ... ok
[INFO] [stdout] test bamstats::tests::test_add_cigar_stats ... ok
[INFO] [stdout] test bamstats::tests::test_cigar_stats_from_test_file ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 6 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.05s
[INFO] [stdout] 
[INFO] [stderr]      Running unittests (/opt/rustwide/target/debug/deps/rustybam-a00e61ffe0de1f8c)
[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 rustybam
[INFO] [stdout] 
[INFO] [stdout] running 17 tests
[INFO] [stdout] test src/nucfreq.rs - nucfreq::nucfreq (line 41) ... FAILED
[INFO] [stdout] test src/paf.rs - paf::cigar_from_str (line 349) ... FAILED
[INFO] [stdout] test src/suns.rs - suns::Genome::convert_from_idx (line 144) ... FAILED
[INFO] [stdout] test src/bed.rs - bed::split_region (line 124) ... FAILED
[INFO] [stdout] test src/suns.rs - suns::Genome::get_shortest_subseq_size (line 62) ... FAILED
[INFO] [stdout] test src/paf.rs - paf::cs_to_cigar (line 532) ... FAILED
[INFO] [stdout] test src/paf.rs - paf::update_cigar_opt_len (line 327) ... FAILED
[INFO] [stdout] test src/paf.rs - paf::PafRecord::new (line 117) ... FAILED
[INFO] [stdout] test src/bed.rs - bed::parse_region (line 48) ... FAILED
[INFO] [stdout] test src/bed.rs - bed::parse_bed_rec (line 74) ... FAILED
[INFO] [stdout] test src/nucfreq.rs - nucfreq::region_nucfreq (line 98) ... FAILED
[INFO] [stdout] test src/bed.rs - bed::parse_bed (line 102) ... FAILED
[INFO] [stdout] test src/paf.rs - paf::Paf::from_file (line 38) ... FAILED
[INFO] [stdout] test src/bed.rs - bed::has_overlap (line 22) ... FAILED
[INFO] [stdout] test src/paf.rs - paf::consumes_query (line 315) ... FAILED
[INFO] [stdout] test src/suns.rs - suns::Genome::get_longest_perfect_repeats (line 85) ... FAILED
[INFO] [stdout] test src/suns.rs - suns::Genome::from_file (line 50) ... FAILED
[INFO] [stdout] 
[INFO] [stdout] failures:
[INFO] [stdout] 
[INFO] [stdout] ---- src/nucfreq.rs - nucfreq::nucfreq (line 41) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/paf.rs - paf::cigar_from_str (line 349) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/suns.rs - suns::Genome::convert_from_idx (line 144) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/bed.rs - bed::split_region (line 124) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/suns.rs - suns::Genome::get_shortest_subseq_size (line 62) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/paf.rs - paf::cs_to_cigar (line 532) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/paf.rs - paf::update_cigar_opt_len (line 327) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/paf.rs - paf::PafRecord::new (line 117) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/bed.rs - bed::parse_region (line 48) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/bed.rs - bed::parse_bed_rec (line 74) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/nucfreq.rs - nucfreq::region_nucfreq (line 98) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/bed.rs - bed::parse_bed (line 102) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/paf.rs - paf::Paf::from_file (line 38) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/bed.rs - bed::has_overlap (line 22) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/paf.rs - paf::consumes_query (line 315) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/suns.rs - suns::Genome::get_longest_perfect_repeats (line 85) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] ---- src/suns.rs - suns::Genome::from_file (line 50) stdout ----
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] 
[INFO] [stdout] failures:
[INFO] [stdout]     src/bed.rs - bed::has_overlap (line 22)
[INFO] [stdout]     src/bed.rs - bed::parse_bed (line 102)
[INFO] [stdout]     src/bed.rs - bed::parse_bed_rec (line 74)
[INFO] [stdout]     src/bed.rs - bed::parse_region (line 48)
[INFO] [stdout]     src/bed.rs - bed::split_region (line 124)
[INFO] [stdout]     src/nucfreq.rs - nucfreq::nucfreq (line 41)
[INFO] [stdout]     src/nucfreq.rs - nucfreq::region_nucfreq (line 98)
[INFO] [stdout]     src/paf.rs - paf::Paf::from_file (line 38)
[INFO] [stdout]     src/paf.rs - paf::PafRecord::new (line 117)
[INFO] [stdout]     src/paf.rs - paf::cigar_from_str (line 349)
[INFO] [stdout]     src/paf.rs - paf::consumes_query (line 315)
[INFO] [stdout]     src/paf.rs - paf::cs_to_cigar (line 532)
[INFO] [stdout]     src/paf.rs - paf::update_cigar_opt_len (line 327)
[INFO] [stdout]     src/suns.rs - suns::Genome::convert_from_idx (line 144)
[INFO] [stdout]     src/suns.rs - suns::Genome::from_file (line 50)
[INFO] [stdout]     src/suns.rs - suns::Genome::get_longest_perfect_repeats (line 85)
[INFO] [stdout]     src/suns.rs - suns::Genome::get_shortest_subseq_size (line 62)
[INFO] [stdout] 
[INFO] [stdout] test result: FAILED. 0 passed; 17 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.88s
[INFO] [stdout] 
[INFO] [stderr] error: test failed, to rerun pass '--doc'
[INFO] running `Command { std: "docker" "inspect" "99906ff2005dc2232f0d7868b7fa3c41d6133912692b6a63cb6585f20d4c4cf0", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "99906ff2005dc2232f0d7868b7fa3c41d6133912692b6a63cb6585f20d4c4cf0", kill_on_drop: false }`
[INFO] [stdout] 99906ff2005dc2232f0d7868b7fa3c41d6133912692b6a63cb6585f20d4c4cf0
