[INFO] fetching crate xloci 0.0.6...
[INFO] testing xloci-0.0.6 against 1.99.0-beta.8 for beta-1.100-2
[INFO] extracting crate xloci 0.0.6 into /workspace/builds/worker-5-tc1/source
[INFO] started tweaking crates.io crate xloci 0.0.6
[INFO] removed 0 missing tests
[INFO] finished tweaking crates.io crate xloci 0.0.6
[INFO] tweaked toml for crates.io crate xloci 0.0.6 written to /workspace/builds/worker-5-tc1/source/Cargo.toml
[INFO] validating manifest of crates.io crate xloci 0.0.6 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 crates.io crate xloci 0.0.6 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]     Updating crates.io index
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded twobit v0.2.1
[INFO] [stderr]   Downloaded tempfile v3.23.0
[INFO] [stderr]   Downloaded clap_lex v1.0.0
[INFO] [stderr]   Downloaded num-conv v0.2.0
[INFO] [stderr]   Downloaded num_cpus v1.17.0
[INFO] [stderr]   Downloaded colorchoice v1.0.4
[INFO] [stderr]   Downloaded hermit-abi v0.5.2
[INFO] [stderr]   Downloaded simd-adler32 v0.3.8
[INFO] [stderr]   Downloaded num_threads v0.1.7
[INFO] [stderr]   Downloaded simple_logger v5.2.0
[INFO] [stderr]   Downloaded itoa v1.0.17
[INFO] [stderr]   Downloaded anstyle v1.0.13
[INFO] [stderr]   Downloaded bitflags v2.10.0
[INFO] [stderr]   Downloaded deranged v0.5.6
[INFO] [stderr]   Downloaded anstream v0.6.21
[INFO] [stderr]   Downloaded anstyle-parse v0.2.7
[INFO] [stderr]   Downloaded memmap2 v0.9.10
[INFO] [stderr]   Downloaded clap_derive v4.5.55
[INFO] [stderr]   Downloaded quote v1.0.44
[INFO] [stderr]   Downloaded colored v3.1.1
[INFO] [stderr]   Downloaded wit-bindgen v0.46.0
[INFO] [stderr]   Downloaded clap v4.5.59
[INFO] [stderr]   Downloaded genepred v0.0.16
[INFO] [stderr]   Downloaded wasip2 v1.0.1+wasi-0.2.4
[INFO] [stderr]   Downloaded rayon v1.11.0
[INFO] [stderr]   Downloaded clap_builder v4.5.59
[INFO] [stderr]   Downloaded syn v2.0.116
[INFO] [stderr]   Downloaded rustix v1.1.2
[INFO] [stderr]   Downloaded libc v0.2.178
[INFO] [stderr]   Downloaded linux-raw-sys v0.11.0
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-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@sha256:3111399a4047eeb3a02b7a90e478d715f38a8c6669b5c4b49d30a17385265909" "sleep" "infinity", kill_on_drop: false }`
[INFO] [stdout] 044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b
[INFO] running `Command { std: "docker" "start" "044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b", 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" "044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b" "/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" "044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b", 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" "044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr]    Compiling libc v0.2.178
[INFO] [stderr]    Compiling crossbeam-utils v0.8.21
[INFO] [stderr]    Compiling quote v1.0.44
[INFO] [stderr]    Compiling utf8parse v0.2.2
[INFO] [stderr]    Compiling crc32fast v1.5.0
[INFO] [stderr]    Compiling rayon-core v1.13.0
[INFO] [stderr]    Compiling getrandom v0.3.4
[INFO] [stderr]    Compiling is_terminal_polyfill v1.70.2
[INFO] [stderr]    Compiling colorchoice v1.0.4
[INFO] [stderr]    Compiling anstyle-query v1.1.5
[INFO] [stderr]    Compiling anstyle v1.0.13
[INFO] [stderr]    Compiling time-core v0.1.8
[INFO] [stderr]    Compiling simd-adler32 v0.3.8
[INFO] [stderr]    Compiling rustix v1.1.2
[INFO] [stderr]    Compiling adler2 v2.0.1
[INFO] [stderr]    Compiling num-conv v0.2.0
[INFO] [stderr]    Compiling powerfmt v0.2.0
[INFO] [stderr]    Compiling anstyle-parse v0.2.7
[INFO] [stderr]    Compiling itoa v1.0.17
[INFO] [stderr]    Compiling miniz_oxide v0.8.9
[INFO] [stderr]    Compiling either v1.15.0
[INFO] [stderr]    Compiling heck v0.5.0
[INFO] [stderr]    Compiling deranged v0.5.6
[INFO] [stderr]    Compiling strsim v0.11.1
[INFO] [stderr]    Compiling clap_lex v1.0.0
[INFO] [stderr]    Compiling bitflags v2.10.0
[INFO] [stderr]    Compiling anstream v0.6.21
[INFO] [stderr]    Compiling time-macros v0.2.27
[INFO] [stderr]    Compiling linux-raw-sys v0.11.0
[INFO] [stderr]    Compiling num_threads v0.1.7
[INFO] [stderr]    Compiling colored v3.1.1
[INFO] [stderr]    Compiling log v0.4.29
[INFO] [stderr]    Compiling fastrand v2.3.0
[INFO] [stderr]    Compiling syn v2.0.116
[INFO] [stderr]    Compiling clap_builder v4.5.59
[INFO] [stderr]    Compiling flate2 v1.1.9
[INFO] [stderr]    Compiling once_cell v1.21.3
[INFO] [stderr]    Compiling memchr v2.8.0
[INFO] [stderr]    Compiling twobit v0.2.1
[INFO] [stderr]    Compiling crossbeam-epoch v0.9.18
[INFO] [stderr]    Compiling crossbeam-deque v0.8.6
[INFO] [stderr]    Compiling rayon v1.11.0
[INFO] [stderr]    Compiling time v0.3.47
[INFO] [stderr]    Compiling memmap2 v0.9.10
[INFO] [stderr]    Compiling num_cpus v1.17.0
[INFO] [stderr]    Compiling tempfile v3.23.0
[INFO] [stderr]    Compiling simple_logger v5.2.0
[INFO] [stderr]    Compiling clap_derive v4.5.55
[INFO] [stderr]    Compiling genepred v0.0.16
[INFO] [stderr]    Compiling clap v4.5.59
[INFO] [stderr]    Compiling xloci v0.0.6 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 13.09s
[INFO] running `Command { std: "docker" "inspect" "044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b", 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" "044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr]    Compiling xloci v0.0.6 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished `test` profile [unoptimized + debuginfo] target(s) in 1.04s
[INFO] running `Command { std: "docker" "inspect" "044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b", 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" "044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "test" "--frozen", kill_on_drop: false }`
[INFO] [stderr]     Finished `test` profile [unoptimized + debuginfo] target(s) in 0.07s
[INFO] [stderr]      Running unittests src/lib.rs (/opt/rustwide/target/debug/deps/xloci-0bf2103dff569d92)
[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]      Running unittests src/main.rs (/opt/rustwide/target/debug/deps/xloci-ba6218daf2da6573)
[INFO] [stderr]      Running tests/io_matrix.rs (/opt/rustwide/target/debug/deps/io_matrix-be6cd9ae1afc9825)
[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] [stdout] 
[INFO] [stdout] running 25 tests
[INFO] [stdout] test test_generic_id_split_uses_piece_bounds_without_flanks ... ok
[INFO] [stdout] test test_as_tsv_add_tab_with_single_flank_uses_three_columns ... ok
[INFO] [stdout] test test_split_extraction_as_tsv_add_tab_uses_piece_flanks ... ok
[INFO] [stdout] test test_ignore_errors_skips_underflowing_split_intron ... ok
[INFO] [stdout] test test_2bit_gff_gz ... ok
[INFO] [stdout] test test_fa_bed_gz ... ok
[INFO] [stdout] test test_generic_id_joined_uses_feature_bounds_without_flanks ... ok
[INFO] [stdout] test test_2bit_bed ... ok
[INFO] [stdout] test test_fa_bed ... ok
[INFO] [stdout] test test_split_extraction_minus_strand_uses_transcript_order ... ok
[INFO] [stdout] test test_2bit_bed_gz ... ok
[INFO] [stdout] test test_fa_gff ... ok
[INFO] [stdout] test test_split_extraction_transcript_uses_mixed_piece_names ... ok
[INFO] [stdout] test test_fa_gtf_gz ... ok
[INFO] [stdout] test test_as_tsv_add_tab_with_both_flanks ... ok
[INFO] [stdout] test test_split_extraction_cds_and_utr_piece_names ... ok
[INFO] [stdout] test test_soft_masking_is_retained_by_default ... ok
[INFO] [stdout] test test_2bit_gtf ... ok
[INFO] [stdout] test test_unmask_uppercases_before_translation ... ok
[INFO] [stdout] test test_unmask_uppercases_joined_fasta_and_reverse_strand ... ok
[INFO] [stdout] test test_stdin_2bit_gff_gz ... ok
[INFO] [stdout] test test_unmask_uppercases_tsv_add_tab_columns ... ok
[INFO] [stdout] test test_stdin_fa_bed ... ok
[INFO] [stdout] test test_add_tab_requires_tsv_and_flanks ... ok
[INFO] [stdout] test test_split_extraction_is_incompatible_with_translate ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 25 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.05s
[INFO] [stdout] 
[INFO] [stderr]    Doc-tests xloci
[INFO] [stdout] 
[INFO] [stdout] running 56 tests
[INFO] [stdout] test src/cli.rs - cli::Args (line 116) ... ignored
[INFO] [stdout] test src/cli.rs - cli::Feature (line 167) ... ignored
[INFO] [stdout] test src/cli.rs - cli::Feature (line 192) ... ignored
[INFO] [stdout] test src/core.rs - core::ExtractedFeature (line 208) ... ignored
[INFO] [stdout] test src/core.rs - core::ExtractedFeature::bounds (line 388) ... ignored
[INFO] [stdout] test src/core.rs - core::ExtractedFeature::is_empty (line 257) ... ignored
[INFO] [stdout] test src/core.rs - core::ExtractedFeature::joined_core (line 275) ... ignored
[INFO] [stdout] test src/core.rs - core::ExtractedFeature::joined_sequence (line 300) ... ignored
[INFO] [stdout] test src/core.rs - core::ExtractedFeature::split_entries (line 333) ... ignored
[INFO] [stdout] test src/core.rs - core::FeaturePiece (line 175) ... ignored
[INFO] [stdout] test src/core.rs - core::OutputConfig (line 90) ... ignored
[INFO] [stdout] test src/core.rs - core::OutputFormat (line 42) ... ignored
[INFO] [stdout] test src/core.rs - core::OutputFormat::extension (line 63) ... ignored
[INFO] [stdout] test src/core.rs - core::PieceKind (line 123) ... ignored
[INFO] [stdout] test src/core.rs - core::PieceKind::suffix (line 146) ... ignored
[INFO] [stdout] test src/core.rs - core::RangeError (line 958) ... ignored
[INFO] [stdout] test src/core.rs - core::RangeError (line 982) ... ignored
[INFO] [stdout] test src/core.rs - core::RegionFormat (line 1827) ... ignored
[INFO] [stdout] test src/core.rs - core::SplitEntry (line 235) ... ignored
[INFO] [stdout] test src/core.rs - core::collect_2bit_sequences (line 2008) ... ignored
[INFO] [stdout] test src/core.rs - core::complement_base (line 1386) ... ignored
[INFO] [stdout] test src/core.rs - core::detect_region_format (line 1848) ... ignored
[INFO] [stdout] test src/core.rs - core::extract_feature (line 1124) ... ignored
[INFO] [stdout] test src/core.rs - core::extract_range (line 1074) ... ignored
[INFO] [stdout] test src/core.rs - core::feature_intervals (line 1018) ... ignored
[INFO] [stdout] test src/core.rs - core::from_2bit (line 1968) ... ignored
[INFO] [stdout] test src/core.rs - core::from_2bit_buf (line 1989) ... ignored
[INFO] [stdout] test src/core.rs - core::from_fa (line 2039) ... ignored
[INFO] [stdout] test src/core.rs - core::from_stdin (line 1913) ... ignored
[INFO] [stdout] test src/core.rs - core::generic_identifier (line 1472) ... ignored
[INFO] [stdout] test src/core.rs - core::get_sequences (line 1886) ... ignored
[INFO] [stdout] test src/core.rs - core::is_compressed_path (line 705) ... ignored
[INFO] [stdout] test src/core.rs - core::is_unambiguous_dna_base (line 2169) ... ignored
[INFO] [stdout] test src/core.rs - core::merge_and_cleanup_chunks (line 727) ... ignored
[INFO] [stdout] test src/core.rs - core::orient_extracted_feature (line 1311) ... ignored
[INFO] [stdout] test src/core.rs - core::output_path (line 781) ... ignored
[INFO] [stdout] test src/core.rs - core::output_sequence (line 1554) ... ignored
[INFO] [stdout] test src/core.rs - core::parse_fasta_reader (line 2069) ... ignored
[INFO] [stdout] test src/core.rs - core::process_reader (line 569) ... ignored
[INFO] [stdout] test src/core.rs - core::read_regions (line 682) ... ignored
[INFO] [stdout] test src/core.rs - core::reverse_complement (line 1346) ... ignored
[INFO] [stdout] test src/core.rs - core::reverse_complement_in_place (line 1364) ... ignored
[INFO] [stdout] test src/core.rs - core::split_identifier (line 1418) ... ignored
[INFO] [stdout] test src/core.rs - core::strand_label (line 1445) ... ignored
[INFO] [stdout] test src/core.rs - core::translate (line 2128) ... ignored
[INFO] [stdout] test src/core.rs - core::translate_codon (line 2187) ... ignored
[INFO] [stdout] test src/core.rs - core::unmask_sequence (line 1575) ... ignored
[INFO] [stdout] test src/core.rs - core::validate_args (line 522) ... ignored
[INFO] [stdout] test src/core.rs - core::with_gzip_extension (line 755) ... ignored
[INFO] [stdout] test src/core.rs - core::write_chunk (line 818) ... ignored
[INFO] [stdout] test src/core.rs - core::write_fasta_record (line 1505) ... ignored
[INFO] [stdout] test src/core.rs - core::write_joined_output (line 1598) ... ignored
[INFO] [stdout] test src/core.rs - core::write_record_output (line 1775) ... ignored
[INFO] [stdout] test src/core.rs - core::write_split_output (line 1676) ... ignored
[INFO] [stdout] test src/core.rs - core::write_tsv_record (line 1530) ... ignored
[INFO] [stdout] test src/core.rs - core::xloci (line 411) ... ignored
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 0 passed; 0 failed; 56 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[INFO] [stdout] all doctests ran in 0.26s; merged doctests compilation took 0.25s
[INFO] running `Command { std: "docker" "inspect" "044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b", kill_on_drop: false }`
[INFO] [stdout] 044829ea4b1193ceb62d3abe3dee397edc96b61e3501afc6e616e52dbc9cbe1b
