[INFO] cloning repository https://github.com/Yamkela-18/transfuse_rust [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/Yamkela-18/transfuse_rust" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FYamkela-18%2Ftransfuse_rust", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FYamkela-18%2Ftransfuse_rust'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 7676b608b0e72fa4f0af8868857e85c1b16495a8 [INFO] testing Yamkela-18/transfuse_rust against 1.99.0-beta.8+cargoflags=--release for beta-release-1.100-2 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FYamkela-18%2Ftransfuse_rust" "/workspace/builds/worker-7-tc1/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-7-tc1/source'... [INFO] [stderr] done. [INFO] started tweaking git repo https://github.com/Yamkela-18/transfuse_rust [INFO] finished tweaking git repo https://github.com/Yamkela-18/transfuse_rust [INFO] tweaked toml for git repo https://github.com/Yamkela-18/transfuse_rust written to /workspace/builds/worker-7-tc1/source/Cargo.toml [INFO] validating manifest of git repo https://github.com/Yamkela-18/transfuse_rust on toolchain 1.99.0-beta.8 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.99.0-beta.8" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate git repo https://github.com/Yamkela-18/transfuse_rust 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" "+1.99.0-beta.8" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded jiff-static v0.2.28 [INFO] [stderr] Downloaded jiff v0.2.28 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/target:/opt/rustwide/target:rw,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" "-m" "1610612736" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:77db811e55d90add9212f6832c23229e3de5f1c1f9905e8cb07319ea15df73ac" "sleep" "infinity", kill_on_drop: false }` [INFO] [stdout] 4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b [INFO] running `Command { std: "docker" "start" "4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-w" "/opt/rustwide/workdir" "--user" "0:0" "4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-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" "-w" "/opt/rustwide/workdir" "--user" "0:0" "4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "build" "--frozen" "--message-format=json" "--release", kill_on_drop: false }` [INFO] [stderr] Compiling memchr v2.8.1 [INFO] [stderr] Compiling rustix v1.1.4 [INFO] [stderr] Compiling libc v0.2.186 [INFO] [stderr] Compiling bitflags v2.11.1 [INFO] [stderr] Compiling serde_core v1.0.228 [INFO] [stderr] Compiling regex-syntax v0.8.10 [INFO] [stderr] Compiling once_cell v1.21.4 [INFO] [stderr] Compiling rayon-core v1.13.0 [INFO] [stderr] Compiling portable-atomic v1.13.1 [INFO] [stderr] Compiling anyhow v1.0.102 [INFO] [stderr] Compiling crossbeam-epoch v0.9.18 [INFO] [stderr] Compiling log v0.4.30 [INFO] [stderr] Compiling unicode-width v0.2.2 [INFO] [stderr] Compiling clap_derive v4.6.1 [INFO] [stderr] Compiling thiserror-impl v1.0.69 [INFO] [stderr] Compiling number_prefix v0.4.0 [INFO] [stderr] Compiling either v1.16.0 [INFO] [stderr] Compiling jiff v0.2.28 [INFO] [stderr] Compiling colored v2.2.0 [INFO] [stderr] Compiling crossbeam-deque v0.8.6 [INFO] [stderr] Compiling thiserror v1.0.69 [INFO] [stderr] Compiling aho-corasick v1.1.4 [INFO] [stderr] Compiling csv-core v0.1.13 [INFO] [stderr] Compiling rayon v1.12.0 [INFO] [stderr] Compiling console v0.15.11 [INFO] [stderr] Compiling getrandom v0.4.2 [INFO] [stderr] Compiling indicatif v0.17.11 [INFO] [stderr] Compiling regex-automata v0.4.14 [INFO] [stderr] Compiling terminal_size v0.4.4 [INFO] [stderr] Compiling tempfile v3.27.0 [INFO] [stderr] Compiling clap_builder v4.6.0 [INFO] [stderr] Compiling csv v1.4.0 [INFO] [stderr] Compiling serde v1.0.228 [INFO] [stderr] Compiling clap v4.6.1 [INFO] [stderr] Compiling regex v1.12.3 [INFO] [stderr] Compiling env_filter v1.0.1 [INFO] [stderr] Compiling env_logger v0.11.10 [INFO] [stderr] Compiling transfuse v0.1.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `release` profile [optimized] target(s) in 50.37s [INFO] running `Command { std: "docker" "inspect" "4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-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" "-w" "/opt/rustwide/workdir" "--user" "0:0" "4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "test" "--frozen" "--no-run" "--message-format=json" "--release", kill_on_drop: false }` [INFO] [stderr] Compiling regex-syntax v0.8.10 [INFO] [stderr] Compiling autocfg v1.5.1 [INFO] [stderr] Compiling predicates-core v1.0.10 [INFO] [stderr] Compiling assert_cmd v2.2.2 [INFO] [stderr] Compiling difflib v0.4.0 [INFO] [stderr] Compiling normalize-line-endings v0.3.0 [INFO] [stderr] Compiling termtree v0.5.1 [INFO] [stderr] Compiling wait-timeout v0.2.1 [INFO] [stderr] Compiling predicates-tree v1.0.13 [INFO] [stderr] Compiling num-traits v0.2.19 [INFO] [stderr] Compiling float-cmp v0.10.0 [INFO] [stderr] Compiling regex-automata v0.4.14 [INFO] [stderr] Compiling regex v1.12.3 [INFO] [stderr] Compiling bstr v1.12.1 [INFO] [stderr] Compiling predicates v3.1.4 [INFO] [stderr] Compiling env_filter v1.0.1 [INFO] [stderr] Compiling env_logger v0.11.10 [INFO] [stderr] Compiling transfuse v0.1.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `release` profile [optimized] target(s) in 24.80s [INFO] running `Command { std: "docker" "inspect" "4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-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" "-w" "/opt/rustwide/workdir" "--user" "0:0" "4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "test" "--frozen" "--release", kill_on_drop: false }` [INFO] [stderr] Finished `release` profile [optimized] target(s) in 0.14s [INFO] [stderr] Running unittests src/main.rs (/opt/rustwide/target/release/deps/transfuse-822627f858a3ca63) [INFO] [stdout] [INFO] [stdout] running 51 tests [INFO] [stdout] test bam::tests::test_median_and_mad_robust_to_outlier ... ok [INFO] [stdout] test bam::tests::test_score_pileup_line_all_matches ... ok [INFO] [stdout] test bam::tests::test_score_pileup_line_skips_indel_and_start_end_markers ... ok [INFO] [stdout] test bam::tests::test_add_to_windows_splits_across_boundary ... ok [INFO] [stdout] test bam::tests::test_score_pileup_line_empty_returns_none ... ok [INFO] [stdout] test bam::tests::test_pair_is_concordant ... ok [INFO] [stdout] test cluster::tests::test_parse_uc_file ... ok [INFO] [stdout] test cluster::tests::test_stream_vsearch_progress_reads_carriage_return_updates ... ok [INFO] [stdout] test bam::tests::test_cigar_ref_len ... ok [INFO] [stdout] test bam::tests::test_score_range ... ok [INFO] [stdout] test bam::tests::test_zero_length_score ... ok [INFO] [stdout] test cluster::tests::test_extract_trailing_percent_absent ... ok [INFO] [stdout] test cluster::tests::test_extract_trailing_percent_present ... ok [INFO] [stdout] test bam::tests::test_score_pileup_line_with_mismatch ... ok [INFO] [stdout] test bam::tests::test_parse_coverage_line ... ok [INFO] [stdout] test cluster::tests::test_validate_identity_bad ... ok [INFO] [stdout] test cluster::tests::test_parse_uc_complex ... ok [INFO] [stdout] test consensus::tests::test_parse_multiple_clusters ... ok [INFO] [stdout] test aligner::tests::test_bam_path_derivation ... ok [INFO] [stdout] test consensus::tests::test_parse_clusters_file_without_trailing_separator ... ok [INFO] [stdout] test consensus::tests::test_pick_best_fallback_no_scores ... ok [INFO] [stdout] test consensus::tests::test_consensus_path_derivation ... ok [INFO] [stdout] test consensus::tests::test_parse_clusters_strips_centroid_asterisk ... ok [INFO] [stdout] test deps::tests::test_semver_ordering ... ok [INFO] [stdout] test consensus::tests::test_pick_best_by_score ... ok [INFO] [stdout] test consensus::tests::test_parse_clusters_blank_line_separator ... ok [INFO] [stdout] test deps::tests::test_semver_parse_basic ... ok [INFO] [stdout] test consensus::tests::test_parse_clusters_excludes_consensus_record ... ok [INFO] [stdout] test consensus::tests::test_parse_single_cluster ... ok [INFO] [stdout] test consensus::tests::test_build_consensus_full_pipeline ... ok [INFO] [stdout] test filter::tests::test_filter_assemblies_errors_on_missing_score ... ok [INFO] [stdout] test bam::tests::test_compute_coverage_calls_on_phase_expected_number_of_times ... ok [INFO] [stdout] test deps::tests::test_semver_parse_finds_version_after_leading_text ... ok [INFO] [stdout] test deps::tests::test_semver_parse_missing_components_default_to_zero ... ok [INFO] [stdout] test deps::tests::test_semver_parse_no_digits_returns_none ... ok [INFO] [stdout] test deps::tests::test_semver_parse_stops_at_non_numeric_suffix ... ok [INFO] [stdout] test filter::tests::test_min_score_can_raise_but_not_lower_the_floor ... ok [INFO] [stdout] test filter::tests::test_filter_assemblies_screens_per_contig_not_per_file ... ok [INFO] [stdout] test quant::tests::test_effective_coverage_normal_case ... ok [INFO] [stdout] test quant::tests::test_effective_coverage_short_contig_inflates ... ok [INFO] [stdout] test fasta::tests::test_concatenate_prefixes_ids ... ok [INFO] [stdout] test quant::tests::test_effective_coverage_zero_eff_len ... ok [INFO] [stdout] test filter::tests::test_write_filtered_fasta ... ok [INFO] [stdout] test fasta::tests::test_empty_lines_ignored ... ok [INFO] [stdout] test fasta::tests::test_lowercase_normalised ... ok [INFO] [stdout] test fasta::tests::test_parse_multiple_records ... ok [INFO] [stdout] test fasta::tests::test_parse_single_record ... ok [INFO] [stdout] test fasta::tests::test_concatenate_stable_index_when_filtered ... ok [INFO] [stdout] test filter::tests::test_filter_assemblies_empty_survivors_still_returns_a_path ... ok [INFO] [stdout] test cluster::tests::test_validate_identity_ok ... ok [INFO] [stdout] test fasta::tests::test_write_round_trip ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 51 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.01s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b", kill_on_drop: false }` [INFO] [stdout] 4f170b954434e92c954374923ca0111d23bbc371b86ef59d456fefbed961a66b