[INFO] cloning repository https://github.com/fulcrumgenomics/guide-counter [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/fulcrumgenomics/guide-counter" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ffulcrumgenomics%2Fguide-counter", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ffulcrumgenomics%2Fguide-counter'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 3b24fb7600bcdc12f29c89d0b5fd85afb95443a4 [INFO] testing fulcrumgenomics/guide-counter against beta-2022-02-22 for beta-1.60-1 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ffulcrumgenomics%2Fguide-counter" "/workspace/builds/worker-29/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-29/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/fulcrumgenomics/guide-counter on toolchain beta-2022-02-22 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta-2022-02-22" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/fulcrumgenomics/guide-counter [INFO] finished tweaking git repo https://github.com/fulcrumgenomics/guide-counter [INFO] tweaked toml for git repo https://github.com/fulcrumgenomics/guide-counter written to /workspace/builds/worker-29/source/Cargo.toml [INFO] crate git repo https://github.com/fulcrumgenomics/guide-counter already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta-2022-02-22" "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 mimalloc v0.1.27 [INFO] [stderr] Downloaded clap v3.0.0-rc.9 [INFO] [stderr] Downloaded clap_derive v3.0.0-rc.9 [INFO] [stderr] Downloaded libmimalloc-sys v0.1.23 [INFO] [stderr] Downloaded fastq v0.6.0 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-29/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-29/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@sha256:0cd99ca24d8e8c98e67c542213511d985b8778b5bdcbb160e038429496686047" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-02-22" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] a23d86bc89551e0553c9cb4085d992f5c6339e2eb8a62dc76c5d151cb48103ba [INFO] running `Command { std: "docker" "start" "-a" "a23d86bc89551e0553c9cb4085d992f5c6339e2eb8a62dc76c5d151cb48103ba", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "a23d86bc89551e0553c9cb4085d992f5c6339e2eb8a62dc76c5d151cb48103ba", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "a23d86bc89551e0553c9cb4085d992f5c6339e2eb8a62dc76c5d151cb48103ba", kill_on_drop: false }` [INFO] [stdout] a23d86bc89551e0553c9cb4085d992f5c6339e2eb8a62dc76c5d151cb48103ba [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-29/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-29/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@sha256:0cd99ca24d8e8c98e67c542213511d985b8778b5bdcbb160e038429496686047" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-02-22" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] ddbb61ea8874c165a28490811b40a61a1db00b841301b23763d01177bdd16fa2 [INFO] running `Command { std: "docker" "start" "-a" "ddbb61ea8874c165a28490811b40a61a1db00b841301b23763d01177bdd16fa2", kill_on_drop: false }` [INFO] [stderr] Compiling cc v1.0.72 [INFO] [stderr] Compiling libc v0.2.112 [INFO] [stderr] Compiling syn v1.0.84 [INFO] [stderr] Compiling pkg-config v0.3.24 [INFO] [stderr] Compiling serde_derive v1.0.132 [INFO] [stderr] Compiling crc32fast v1.3.0 [INFO] [stderr] Compiling serde v1.0.132 [INFO] [stderr] Compiling adler v1.0.2 [INFO] [stderr] Compiling unicode-segmentation v1.8.0 [INFO] [stderr] Compiling log v0.4.14 [INFO] [stderr] Compiling regex-automata v0.1.10 [INFO] [stderr] Compiling once_cell v1.9.0 [INFO] [stderr] Compiling either v1.6.1 [INFO] [stderr] Compiling itoa v0.4.8 [INFO] [stderr] Compiling humantime v2.1.0 [INFO] [stderr] Compiling textwrap v0.14.2 [INFO] [stderr] Compiling miniz_oxide v0.4.4 [INFO] [stderr] Compiling indexmap v1.7.0 [INFO] [stderr] Compiling ahash v0.7.6 [INFO] [stderr] Compiling os_str_bytes v6.0.0 [INFO] [stderr] Compiling csv-core v0.1.10 [INFO] [stderr] Compiling proc-macro-error-attr v1.0.4 [INFO] [stderr] Compiling itertools v0.10.3 [INFO] [stderr] Compiling heck v0.3.3 [INFO] [stderr] Compiling lz4-sys v1.9.2 [INFO] [stderr] Compiling libz-sys v1.1.3 [INFO] [stderr] Compiling libmimalloc-sys v0.1.23 [INFO] [stderr] Compiling atty v0.2.14 [INFO] [stderr] Compiling getrandom v0.2.3 [INFO] [stderr] Compiling env_logger v0.8.4 [INFO] [stderr] Compiling flate2 v1.0.22 [INFO] [stderr] Compiling mimalloc v0.1.27 [INFO] [stderr] Compiling proc-macro-error v1.0.4 [INFO] [stderr] Compiling clap_derive v3.0.0-rc.9 [INFO] [stderr] Compiling enum_dispatch v0.3.7 [INFO] [stderr] Compiling clap v3.0.0-rc.9 [INFO] [stderr] Compiling lz4 v1.23.2 [INFO] [stderr] Compiling fastq v0.6.0 [INFO] [stderr] Compiling bstr v0.2.17 [INFO] [stderr] Compiling csv v1.1.6 [INFO] [stderr] Compiling guide-counter v0.1.2 (/opt/rustwide/workdir) [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 14.24s [INFO] running `Command { std: "docker" "inspect" "ddbb61ea8874c165a28490811b40a61a1db00b841301b23763d01177bdd16fa2", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "ddbb61ea8874c165a28490811b40a61a1db00b841301b23763d01177bdd16fa2", kill_on_drop: false }` [INFO] [stdout] ddbb61ea8874c165a28490811b40a61a1db00b841301b23763d01177bdd16fa2 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-29/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-29/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@sha256:0cd99ca24d8e8c98e67c542213511d985b8778b5bdcbb160e038429496686047" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-02-22" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] e24d6872fbd25e1c80560899b43b1f608c792750e7341f9ed9ab544355ebd8bc [INFO] running `Command { std: "docker" "start" "-a" "e24d6872fbd25e1c80560899b43b1f608c792750e7341f9ed9ab544355ebd8bc", kill_on_drop: false }` [INFO] [stderr] Compiling ppv-lite86 v0.2.15 [INFO] [stderr] Compiling getrandom v0.2.3 [INFO] [stderr] Compiling rand_core v0.6.3 [INFO] [stderr] Compiling ahash v0.7.6 [INFO] [stderr] Compiling rand_chacha v0.3.1 [INFO] [stderr] Compiling rand v0.8.4 [INFO] [stderr] Compiling tempfile v3.2.0 [INFO] [stderr] Compiling guide-counter v0.1.2 (/opt/rustwide/workdir) [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 4.33s [INFO] running `Command { std: "docker" "inspect" "e24d6872fbd25e1c80560899b43b1f608c792750e7341f9ed9ab544355ebd8bc", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "e24d6872fbd25e1c80560899b43b1f608c792750e7341f9ed9ab544355ebd8bc", kill_on_drop: false }` [INFO] [stdout] e24d6872fbd25e1c80560899b43b1f608c792750e7341f9ed9ab544355ebd8bc [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-29/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-29/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@sha256:0cd99ca24d8e8c98e67c542213511d985b8778b5bdcbb160e038429496686047" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-02-22" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] 72c98369045b0e154dae17e63f4372f74ca216abd56ff35f7f8129db73b8c945 [INFO] running `Command { std: "docker" "start" "-a" "72c98369045b0e154dae17e63f4372f74ca216abd56ff35f7f8129db73b8c945", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 0.70s [INFO] [stderr] Running unittests (/opt/rustwide/target/debug/deps/guide_counter-129b2097bfb87603) [INFO] [stdout] [INFO] [stdout] running 22 tests [INFO] [stdout] test commands::count::tests::test_sample_name ... ok [INFO] [stdout] test guide::tests::test_guide_library_rejects_duplicate_sequences ... ok [INFO] [stdout] test guide::tests::test_guide_uppercases_sequence ... ok [INFO] [stdout] test guide::tests::test_guide_library_rejects_mixed_length ... ok [INFO] [stdout] test guide::tests::test_guide_library_positive ... ok [INFO] [stdout] test guide::tests::test_is_all_acgt ... ok [INFO] [stdout] test commands::count::tests::test_determine_prefixes_finds_last_offset ... ok [INFO] [stdout] test guide::tests::test_guide_library_rejects_invalid_sequences ... ok [INFO] [stdout] test commands::count::tests::test_build_lookup ... ok [INFO] [stdout] test commands::count::tests::test_count_reads_handles_empty_fastq ... ok [INFO] [stdout] test guide::tests::test_reading_guide_library_from_tsv_file ... ok [INFO] [stdout] test guide::tests::test_reading_guide_library_from_csv_file ... ok [INFO] [stdout] test commands::count::tests::test_determine_prefixes_finds_offset_zero ... ok [INFO] [stdout] test io::tests::test_reading_and_writing_lines_to_file ... ok [INFO] [stdout] test io::tests::test_reading_and_writing_gzip_files ... ok [INFO] [stdout] test io::tests::test_reading_and_writing_empty_delim_file ... ok [INFO] [stdout] test commands::count::tests::test_determine_prefixes_actually_subsamples ... ok [INFO] [stdout] test io::tests::test_reading_and_writing_delim_file ... ok [INFO] [stdout] test guide::tests::test_load_guide_library_from_files ... ok [INFO] [stdout] test commands::count::tests::test_determine_prefixes_min_fraction ... ok [INFO] [stdout] test commands::count::tests::test_count_reads ... ok [INFO] [stdout] test commands::count::tests::test_end_to_end ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 22 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.03s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "72c98369045b0e154dae17e63f4372f74ca216abd56ff35f7f8129db73b8c945", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "72c98369045b0e154dae17e63f4372f74ca216abd56ff35f7f8129db73b8c945", kill_on_drop: false }` [INFO] [stdout] 72c98369045b0e154dae17e63f4372f74ca216abd56ff35f7f8129db73b8c945