[INFO] cloning repository https://github.com/erdikilic/amplirust [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/erdikilic/amplirust" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ferdikilic%2Famplirust", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ferdikilic%2Famplirust'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 4c11a759ea4a532e7a32fa32bd0df47daaa53ae0 [INFO] testing erdikilic/amplirust against master#ec6f9a5b4413f74386267ef8efc93712c2ce6db6 for pr-155739 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ferdikilic%2Famplirust" "/workspace/builds/worker-3-tc1/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-3-tc1/source'... [INFO] [stderr] done. [INFO] removed /workspace/builds/worker-3-tc1/source/.cargo/config.toml [INFO] started tweaking git repo https://github.com/erdikilic/amplirust [INFO] finished tweaking git repo https://github.com/erdikilic/amplirust [INFO] tweaked toml for git repo https://github.com/erdikilic/amplirust written to /workspace/builds/worker-3-tc1/source/Cargo.toml [INFO] validating manifest of git repo https://github.com/erdikilic/amplirust on toolchain ec6f9a5b4413f74386267ef8efc93712c2ce6db6 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+ec6f9a5b4413f74386267ef8efc93712c2ce6db6" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate git repo https://github.com/erdikilic/amplirust 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" "+ec6f9a5b4413f74386267ef8efc93712c2ce6db6" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Updating crates.io index [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded getrandom v0.4.1 [INFO] [stderr] Downloaded pa-types v1.3.0 [INFO] [stderr] Downloaded ensure_simd v0.1.0 [INFO] [stderr] Downloaded wasm-bindgen-shared v0.2.113 [INFO] [stderr] Downloaded wasm-bindgen-macro v0.2.113 [INFO] [stderr] Downloaded core_affinity v0.8.3 [INFO] [stderr] Downloaded buffer-redux v1.0.2 [INFO] [stderr] Downloaded colored v3.1.1 [INFO] [stderr] Downloaded liblzma v0.3.6 [INFO] [stderr] Downloaded seq_io v0.3.4 [INFO] [stderr] Downloaded safe_arch v1.0.0 [INFO] [stderr] Downloaded wasm-bindgen v0.2.113 [INFO] [stderr] Downloaded wasm-bindgen-macro-support v0.2.113 [INFO] [stderr] Downloaded jiff-static v0.2.21 [INFO] [stderr] Downloaded insta v1.46.3 [INFO] [stderr] Downloaded js-sys v0.3.90 [INFO] [stderr] Downloaded wide v1.1.1 [INFO] [stderr] Downloaded proptest v1.10.0 [INFO] [stderr] Downloaded needletail v0.6.3 [INFO] [stderr] Downloaded libz-ng-sys v1.1.24 [INFO] [stderr] Downloaded sassy v0.2.0 [INFO] [stderr] Downloaded web-sys v0.3.90 [INFO] [stderr] Downloaded libc v0.2.182 [INFO] [stderr] Downloaded jiff v0.2.21 [INFO] [stderr] Downloaded liblzma-sys v0.3.13 [INFO] [stderr] Downloaded gzp v2.0.2 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+ec6f9a5b4413f74386267ef8efc93712c2ce6db6" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 01c78875b6d598641f0aa237b3ace939818b5348e6f8f2c76a7b0a3f23645a8f [INFO] running `Command { std: "docker" "start" "-a" "01c78875b6d598641f0aa237b3ace939818b5348e6f8f2c76a7b0a3f23645a8f", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "01c78875b6d598641f0aa237b3ace939818b5348e6f8f2c76a7b0a3f23645a8f", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "01c78875b6d598641f0aa237b3ace939818b5348e6f8f2c76a7b0a3f23645a8f", kill_on_drop: false }` [INFO] [stdout] 01c78875b6d598641f0aa237b3ace939818b5348e6f8f2c76a7b0a3f23645a8f [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+ec6f9a5b4413f74386267ef8efc93712c2ce6db6" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 93ada3870d75a28a86b911be8b799578c3b3364dd96fc03ccba149bc09b0ade6 [INFO] running `Command { std: "docker" "start" "-a" "93ada3870d75a28a86b911be8b799578c3b3364dd96fc03ccba149bc09b0ade6", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.182 [INFO] [stderr] Compiling serde_core v1.0.228 [INFO] [stderr] Compiling zerocopy v0.8.39 [INFO] [stderr] Compiling aho-corasick v1.1.4 [INFO] [stderr] Compiling anstyle-parse v0.2.7 [INFO] [stderr] Compiling regex-syntax v0.8.10 [INFO] [stderr] Compiling colorchoice v1.0.4 [INFO] [stderr] Compiling anstyle v1.0.13 [INFO] [stderr] Compiling simd-adler32 v0.3.8 [INFO] [stderr] Compiling zstd-safe v7.2.4 [INFO] [stderr] Compiling log v0.4.29 [INFO] [stderr] Compiling quote v1.0.44 [INFO] [stderr] Compiling syn v1.0.109 [INFO] [stderr] Compiling buffer-redux v1.0.2 [INFO] [stderr] Compiling bytemuck v1.25.0 [INFO] [stderr] Compiling portable-atomic v1.13.1 [INFO] [stderr] Compiling miniz_oxide v0.8.9 [INFO] [stderr] Compiling syn v2.0.117 [INFO] [stderr] Compiling clap_lex v1.0.0 [INFO] [stderr] Compiling safe_arch v1.0.0 [INFO] [stderr] Compiling spin v0.9.8 [INFO] [stderr] Compiling futures-core v0.3.32 [INFO] [stderr] Compiling once_cell v1.21.3 [INFO] [stderr] Compiling bytecount v0.6.9 [INFO] [stderr] Compiling anstream v0.6.21 [INFO] [stderr] Compiling jiff v0.2.21 [INFO] [stderr] Compiling futures-sink v0.3.32 [INFO] [stderr] Compiling wide v1.1.1 [INFO] [stderr] Compiling rayon v1.11.0 [INFO] [stderr] Compiling csv-core v0.1.13 [INFO] [stderr] Compiling clap_builder v4.5.60 [INFO] [stderr] Compiling colored v3.1.1 [INFO] [stderr] Compiling number_prefix v0.4.0 [INFO] [stderr] Compiling ensure_simd v0.1.0 [INFO] [stderr] Compiling scoped_threadpool v0.1.9 [INFO] [stderr] Compiling crossbeam-channel v0.5.15 [INFO] [stderr] Compiling glob v0.3.3 [INFO] [stderr] Compiling regex-automata v0.4.14 [INFO] [stderr] Compiling jobserver v0.1.34 [INFO] [stderr] Compiling getrandom v0.3.4 [INFO] [stderr] Compiling num_cpus v1.17.0 [INFO] [stderr] Compiling getrandom v0.2.17 [INFO] [stderr] Compiling rand_core v0.9.5 [INFO] [stderr] Compiling nanorand v0.7.0 [INFO] [stderr] Compiling cc v1.2.56 [INFO] [stderr] Compiling core_affinity v0.8.3 [INFO] [stderr] Compiling console v0.15.11 [INFO] [stderr] Compiling flume v0.11.1 [INFO] [stderr] Compiling indicatif v0.17.11 [INFO] [stderr] Compiling derivative v2.2.0 [INFO] [stderr] Compiling cmake v0.1.57 [INFO] [stderr] Compiling zstd-sys v2.0.16+zstd.1.5.7 [INFO] [stderr] Compiling bzip2-sys v0.1.13+1.0.8 [INFO] [stderr] Compiling liblzma-sys v0.3.13 [INFO] [stderr] Compiling csv v1.4.0 [INFO] [stderr] Compiling libz-ng-sys v1.1.24 [INFO] [stderr] Compiling bzip2 v0.4.4 [INFO] [stderr] Compiling regex v1.12.3 [INFO] [stderr] Compiling serde_derive v1.0.228 [INFO] [stderr] Compiling derive_more-impl v2.1.1 [INFO] [stderr] Compiling thiserror-impl v2.0.18 [INFO] [stderr] Compiling ppv-lite86 v0.2.21 [INFO] [stderr] Compiling liblzma v0.3.6 [INFO] [stderr] Compiling env_filter v1.0.0 [INFO] [stderr] Compiling clap_derive v4.5.55 [INFO] [stderr] Compiling thiserror-impl v1.0.69 [INFO] [stderr] Compiling env_logger v0.11.9 [INFO] [stderr] Compiling rand_chacha v0.9.0 [INFO] [stderr] Compiling rand v0.9.2 [INFO] [stderr] Compiling derive_more v2.1.1 [INFO] [stderr] Compiling thiserror v2.0.18 [INFO] [stderr] Compiling thiserror v1.0.69 [INFO] [stderr] Compiling serde v1.0.228 [INFO] [stderr] Compiling clap v4.5.60 [INFO] [stderr] Compiling pa-types v1.3.0 [INFO] [stderr] Compiling seq_io v0.3.4 [INFO] [stderr] Compiling zstd v0.13.3 [INFO] [stderr] Compiling flate2 v1.1.9 [INFO] [stderr] Compiling gzp v2.0.2 [INFO] [stderr] Compiling needletail v0.6.3 [INFO] [stderr] Compiling sassy v0.2.0 [INFO] [stderr] Compiling amplirust v0.3.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 1m 12s [INFO] running `Command { std: "docker" "inspect" "93ada3870d75a28a86b911be8b799578c3b3364dd96fc03ccba149bc09b0ade6", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "93ada3870d75a28a86b911be8b799578c3b3364dd96fc03ccba149bc09b0ade6", kill_on_drop: false }` [INFO] [stdout] 93ada3870d75a28a86b911be8b799578c3b3364dd96fc03ccba149bc09b0ade6 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+ec6f9a5b4413f74386267ef8efc93712c2ce6db6" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 562855ffd04cb822305a3b7770e0e407ad8d68c359c284557d7b77941099d2bf [INFO] running `Command { std: "docker" "start" "-a" "562855ffd04cb822305a3b7770e0e407ad8d68c359c284557d7b77941099d2bf", kill_on_drop: false }` [INFO] [stderr] Compiling serde_core v1.0.228 [INFO] [stderr] Compiling zerocopy v0.8.39 [INFO] [stderr] Compiling serde v1.0.228 [INFO] [stderr] Compiling regex-automata v0.4.14 [INFO] [stderr] Compiling getrandom v0.4.1 [INFO] [stderr] Compiling rustix v1.1.4 [INFO] [stderr] Compiling zerocopy-derive v0.8.39 [INFO] [stderr] Compiling num-traits v0.2.19 [INFO] [stderr] Compiling alloca v0.4.0 [INFO] [stderr] Compiling ciborium-io v0.2.2 [INFO] [stderr] Compiling plotters-backend v0.3.7 [INFO] [stderr] Compiling wait-timeout v0.2.1 [INFO] [stderr] Compiling itertools v0.13.0 [INFO] [stderr] Compiling cast v0.3.0 [INFO] [stderr] Compiling quick-error v1.2.3 [INFO] [stderr] Compiling bit-vec v0.8.0 [INFO] [stderr] Compiling rand_xorshift v0.4.0 [INFO] [stderr] Compiling page_size v0.6.0 [INFO] [stderr] Compiling unarray v0.1.4 [INFO] [stderr] Compiling similar v2.7.0 [INFO] [stderr] Compiling bit-set v0.8.0 [INFO] [stderr] Compiling oorandom v11.1.5 [INFO] [stderr] Compiling plotters-svg v0.3.7 [INFO] [stderr] Compiling anes v0.1.6 [INFO] [stderr] Compiling rand v0.10.0 [INFO] [stderr] Compiling plotters v0.3.7 [INFO] [stderr] Compiling criterion-plot v0.8.2 [INFO] [stderr] Compiling tempfile v3.26.0 [INFO] [stderr] Compiling serde_json v1.0.149 [INFO] [stderr] Compiling csv v1.4.0 [INFO] [stderr] Compiling rusty-fork v0.3.1 [INFO] [stderr] Compiling insta v1.46.3 [INFO] [stderr] Compiling regex v1.12.3 [INFO] [stderr] Compiling env_filter v1.0.0 [INFO] [stderr] Compiling env_logger v0.11.9 [INFO] [stderr] Compiling pa-types v1.3.0 [INFO] [stderr] Compiling seq_io v0.3.4 [INFO] [stderr] Compiling tinytemplate v1.2.1 [INFO] [stderr] Compiling ppv-lite86 v0.2.21 [INFO] [stderr] Compiling half v2.7.1 [INFO] [stderr] Compiling rand_chacha v0.9.0 [INFO] [stderr] Compiling ciborium-ll v0.2.2 [INFO] [stderr] Compiling ciborium v0.2.2 [INFO] [stderr] Compiling rand v0.9.2 [INFO] [stderr] Compiling criterion v0.8.2 [INFO] [stderr] Compiling proptest v1.10.0 [INFO] [stderr] Compiling sassy v0.2.0 [INFO] [stderr] Compiling amplirust v0.3.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 42.56s [INFO] running `Command { std: "docker" "inspect" "562855ffd04cb822305a3b7770e0e407ad8d68c359c284557d7b77941099d2bf", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "562855ffd04cb822305a3b7770e0e407ad8d68c359c284557d7b77941099d2bf", kill_on_drop: false }` [INFO] [stdout] 562855ffd04cb822305a3b7770e0e407ad8d68c359c284557d7b77941099d2bf [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+ec6f9a5b4413f74386267ef8efc93712c2ce6db6" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] dd8387e84238da29c7309902784ccf667f139490ce4c23e0299e312141d79bc8 [INFO] running `Command { std: "docker" "start" "-a" "dd8387e84238da29c7309902784ccf667f139490ce4c23e0299e312141d79bc8", kill_on_drop: false }` [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.34s [INFO] [stderr] Running unittests src/lib.rs (/opt/rustwide/target/debug/deps/amplirust-14ed42e586559a8a) [INFO] [stdout] [INFO] [stdout] running 243 tests [INFO] [stdout] test cli::tests::test_effective_threads_explicit ... ok [INFO] [stdout] test cli::tests::test_default_values ... ok [INFO] [stdout] test cli::tests::test_multiple_inputs ... ok [INFO] [stdout] test cli::tests::test_output_is_gzipped_no_output ... ok [INFO] [stdout] test cli::tests::test_effective_threads_auto ... ok [INFO] [stdout] test cli::tests::test_show_progress ... ok [INFO] [stdout] test cli::tests::test_output_is_gzipped_false ... ok [INFO] [stdout] test cli::tests::test_output_is_gzipped_true ... ok [INFO] [stdout] test errors::tests::test_csv_format_display ... ok [INFO] [stdout] test errors::tests::test_line_too_long_display ... ok [INFO] [stdout] test errors::tests::test_output_dir_missing_display ... ok [INFO] [stdout] test errors::tests::test_output_not_writable_display ... ok [INFO] [stdout] test errors::tests::test_decompression_limit_display ... ok [INFO] [stdout] test genbank::tests::parity_accession_before_definition ... ok [INFO] [stdout] test genbank::tests::parity_definition_continuation ... ok [INFO] [stdout] test genbank::tests::parity_definition_then_locus_no_terminator ... ok [INFO] [stdout] test genbank::tests::parity_minimal_record ... ok [INFO] [stdout] test genbank::tests::parity_multi_record ... ok [INFO] [stdout] test genbank::tests::parity_no_origin ... ok [INFO] [stdout] test genbank::tests::parity_features_between_header_and_origin ... ok [INFO] [stdout] test genbank::tests::test_circular_topology ... ok [INFO] [stdout] test genbank::tests::parity_realistic_record ... ok [INFO] [stdout] test genbank::tests::test_consecutive_locus_no_terminator ... ok [INFO] [stdout] test genbank::tests::test_definition_eof_during_continuation ... ok [INFO] [stdout] test genbank::tests::parity_truncated_eof ... ok [INFO] [stdout] test genbank::tests::test_definition_multiline_then_origin ... ok [INFO] [stdout] test genbank::tests::test_accession_multiple_tokens ... ok [INFO] [stdout] test genbank::tests::parity_missing_terminator ... ok [INFO] [stdout] test genbank::tests::test_definition_followed_by_features ... ok [INFO] [stdout] test genbank::tests::test_definition_followed_by_origin ... ok [INFO] [stdout] test genbank::tests::test_definition_then_locus_no_terminator ... ok [INFO] [stdout] test genbank::tests::test_definition_three_continuation_lines ... ok [INFO] [stdout] test genbank::tests::test_linear_topology ... ok [INFO] [stdout] test genbank::tests::test_locus_no_topology_keyword ... ok [INFO] [stdout] test genbank::tests::test_max_line_length_ok_at_limit ... ok [INFO] [stdout] test genbank::tests::test_multi_record ... ok [INFO] [stdout] test genbank::tests::test_locus_name_extraction ... ok [INFO] [stdout] test genbank::tests::test_no_origin_empty_sequence ... ok [INFO] [stdout] test genbank::tests::test_only_whitespace_between_records ... ok [INFO] [stdout] test genbank::tests::test_origin_sequence ... ok [INFO] [stdout] test genbank::tests::test_max_line_length_enforced ... ok [INFO] [stdout] test genbank::tests::test_minimal_fields ... ok [INFO] [stdout] test genbank::tests::test_empty_accession_line ... ok [INFO] [stdout] test genbank::tests::test_empty_input ... ok [INFO] [stdout] test genbank::tests::test_large_sequence_many_origin_lines ... ok [INFO] [stdout] test genbank::tests::test_origin_then_immediate_terminator ... ok [INFO] [stdout] test genbank::tests::parity_empty_input ... ok [INFO] [stdout] test genbank::tests::test_preamble_before_locus ... ok [INFO] [stdout] test genbank::tests::test_realistic_full_record ... ok [INFO] [stdout] test genbank::tests::test_definition_followed_by_record_terminator ... ok [INFO] [stdout] test genbank::tests::test_short_locus_line ... ok [INFO] [stdout] test genbank::tests::test_slice_consecutive_no_terminator ... ok [INFO] [stdout] test genbank::tests::test_definition_with_continuation ... ok [INFO] [stdout] test genbank::tests::test_mixed_case_sequence_preserved ... ok [INFO] [stdout] test genbank::tests::test_accession_before_definition ... ok [INFO] [stdout] test genbank::tests::test_features_skipped ... ok [INFO] [stdout] test genbank::tests::test_accession_parsing ... ok [INFO] [stdout] test genbank::tests::test_from_bufreader_constructor ... ok [INFO] [stdout] test genbank::tests::test_record_terminated_by_eof ... ok [INFO] [stdout] test genbank::tests::test_sequence_with_n_characters ... ok [INFO] [stdout] test genbank::tests::test_definition_simple ... ok [INFO] [stdout] test genbank::tests::test_slice_basic ... ok [INFO] [stdout] test genbank::tests::test_slice_multi_record ... ok [INFO] [stdout] test genbank::tests::test_slice_parity_with_streaming ... ok [INFO] [stdout] test genbank::tests::test_slice_realistic_full_record ... ok [INFO] [stdout] test genbank::tests::test_three_records ... ok [INFO] [stdout] test input::tests::test_detect_format_gz_variants ... ok [INFO] [stdout] test input::tests::test_detect_format_unknown ... ok [INFO] [stdout] test input::tests::test_detect_format_genbank_extensions ... ok [INFO] [stdout] test input::tests::test_expand_empty_patterns ... ok [INFO] [stdout] test input::tests::test_expand_nonexistent_file_error ... ok [INFO] [stdout] test input::tests::test_invalid_fasta_format ... ok [INFO] [stdout] test input::tests::test_detect_format_case_insensitive ... ok [INFO] [stdout] test input::tests::test_detect_format_fasta_extensions ... ok [INFO] [stdout] test input::tests::test_fasta_with_empty_sequence ... ok [INFO] [stdout] test genbank::tests::test_slice_features_skipped ... ok [INFO] [stdout] test input::tests::test_is_gzipped ... ok [INFO] [stdout] test input::tests::test_is_bgzf_plain_file ... ok [INFO] [stdout] test input::tests::test_glob_deduplication ... ok [INFO] [stdout] test input::tests::test_parse_fasta ... ok [INFO] [stdout] test input::tests::test_expand_skips_non_sequence_files ... ok [INFO] [stdout] test input::tests::test_is_bgzf_too_small ... ok [INFO] [stdout] test input::tests::test_is_bgzf_standard_gzip ... ok [INFO] [stdout] test input::tests::test_parse_fasta_multiline ... ok [INFO] [stdout] test input::tests::test_parse_genbank_empty_sequence_skipped ... ok [INFO] [stdout] test input::tests::test_parse_genbank_header_fallback_name ... ok [INFO] [stdout] test input::tests::test_parse_genbank_header_fallback_unknown ... ok [INFO] [stdout] test input::tests::test_parse_genbank_single_record ... ok [INFO] [stdout] test input::tests::test_parse_genbank_uppercase ... ok [INFO] [stdout] test input::tests::test_parser_name ... ok [INFO] [stdout] test input::tests::test_read_sequences_from_genbank_file ... ok [INFO] [stdout] test input::tests::test_uppercase_conversion ... ok [INFO] [stdout] test matcher::tests::test_exact_match ... ok [INFO] [stdout] test input::tests::test_streaming_genbank_reader ... ok [INFO] [stdout] test matcher::tests::test_find_forward_matches_standalone ... ok [INFO] [stdout] test matcher::tests::test_find_matches_raw_empty_sequence ... ok [INFO] [stdout] test matcher::tests::test_find_reverse_matches_no_match ... ok [INFO] [stdout] test matcher::tests::test_find_reverse_matches_standalone ... ok [INFO] [stdout] test matcher::tests::test_iupac_matching ... ok [INFO] [stdout] test matcher::tests::test_identity_just_below_threshold ... ok [INFO] [stdout] test matcher::tests::test_match_len_calculation ... ok [INFO] [stdout] test matcher::tests::test_find_matches_raw_returns_results ... ok [INFO] [stdout] test matcher::tests::test_identity_filter ... ok [INFO] [stdout] test matcher::tests::test_mismatch ... ok [INFO] [stdout] test output::tests::test_fasta_short_sequence_no_wrap ... ok [INFO] [stdout] test output::tests::test_fasta_line_wrapping ... ok [INFO] [stdout] test output::tests::test_fasta_header_format ... ok [INFO] [stdout] test matcher::tests::test_rc_mode ... ok [INFO] [stdout] test output::tests::test_run_summary ... ok [INFO] [stdout] test matcher::tests::test_searches_rc_false ... ok [INFO] [stdout] test matcher::tests::test_searches_rc_true ... ok [INFO] [stdout] test matcher::tests::test_find_matches_raw_empty_primer ... ok [INFO] [stdout] test output::tests::test_run_summary_empty ... ok [INFO] [stdout] test output::tests::test_run_summary_many_references_branch ... ok [INFO] [stdout] test matcher::tests::test_identity_exactly_at_threshold ... ok [INFO] [stdout] test output::tests::test_validate_output_writable_ok ... ok [INFO] [stdout] test output::tests::test_run_summary_from_counts ... ok [INFO] [stdout] test output::tests::test_tsv_all_columns_present ... ok [INFO] [stdout] test output::tests::test_tsv_special_characters_in_header ... ok [INFO] [stdout] test output::tests::test_write_fasta_plain ... ok [INFO] [stdout] test output::tests::test_tsv_tab_in_header_breaks_format ... ok [INFO] [stdout] test output::tests::test_write_fasta_gzip_roundtrip ... ok [INFO] [stdout] test pcr::tests::test_assign_case_numbers_multiple_references ... ok [INFO] [stdout] test pcr::tests::test_canonical_sequence_non_empty ... ok [INFO] [stdout] test pcr::tests::test_canonical_sequence_ordering ... ok [INFO] [stdout] test pcr::tests::test_canonical_sequence_palindrome ... ok [INFO] [stdout] test output::tests::test_validate_output_writable_bare_filename ... ok [INFO] [stdout] test pcr::tests::test_circular_rc_combination ... ok [INFO] [stdout] test pcr::tests::test_circular_product_at_boundary ... ok [INFO] [stdout] test output::tests::test_write_tsv ... ok [INFO] [stdout] test pcr::tests::test_canonical_sequence_uses_rc_when_smaller ... ok [INFO] [stdout] test pcr::tests::test_max_n_fraction_filter ... ok [INFO] [stdout] test pcr::tests::test_circular_short_sequence ... ok [INFO] [stdout] test pcr::tests::test_n_fraction_zero_filters_any_n ... ok [INFO] [stdout] test pcr::tests::test_n_fraction_exact_threshold ... ok [INFO] [stdout] test pcr::tests::test_pcr_product_is_empty ... ok [INFO] [stdout] test input::tests::test_empty_fasta_file ... ok [INFO] [stdout] test input::tests::test_parse_genbank_multi_record ... ok [INFO] [stdout] test pcr::tests::test_pool_empty_inputs ... ok [INFO] [stdout] test pcr::tests::test_pool_basic_two_primers ... ok [INFO] [stdout] test pcr::tests::test_pool_single_primer_no_self_match ... ok [INFO] [stdout] test pcr::tests::test_pool_circular_genome ... ok [INFO] [stdout] test pcr::tests::test_product_header_uses_reference_id ... ok [INFO] [stdout] test pcr::tests::test_pool_both_orientations ... ok [INFO] [stdout] test pcr::tests::test_pool_three_primers ... ok [INFO] [stdout] test pcr::tests::test_pool_case_numbers_assigned ... ok [INFO] [stdout] test pcr::tests::test_product_header ... ok [INFO] [stdout] test pcr::tests::test_pool_self_match_disabled ... ok [INFO] [stdout] test pcr::tests::test_pool_self_match_enabled ... ok [INFO] [stdout] test pcr::tests::test_pool_length_filtering ... ok [INFO] [stdout] test pcr::tests::test_product_length_above_max_excluded ... ok [INFO] [stdout] test pcr::tests::test_pool_rc_strand ... ok [INFO] [stdout] test pcr::tests::test_rc_product_header ... ok [INFO] [stdout] test pipeline::tests::test_buffer_size_capped_at_max ... ok [INFO] [stdout] test pcr::tests::test_product_length_below_min_excluded ... ok [INFO] [stdout] test pcr::tests::test_rc_products_not_reversed ... ok [INFO] [stdout] test pcr::tests::test_trim_primers_adjacent ... ok [INFO] [stdout] test pcr::tests::test_trim_primers_circular_wrap ... ok [INFO] [stdout] test pipeline::tests::test_buffer_size_exact_boundary_1m ... ok [INFO] [stdout] test pipeline::tests::test_buffer_size_medium_file ... ok [INFO] [stdout] test pcr::tests::test_product_length_at_min_boundary ... ok [INFO] [stdout] test pipeline::tests::test_buffer_size_exact_boundary_100m ... ok [INFO] [stdout] test pipeline::tests::test_buffer_size_large_file_many_threads ... ok [INFO] [stdout] test pcr::tests::test_rc_strand_product_discovery ... ok [INFO] [stdout] test matcher::tests::test_find_forward_matches_no_match ... ok [INFO] [stdout] test pcr::tests::test_simple_pcr_product ... ok [INFO] [stdout] test pipeline::tests::test_buffer_size_never_below_min ... ok [INFO] [stdout] test pipeline::tests::test_buffer_size_no_hint ... ok [INFO] [stdout] test pipeline::tests::test_buffer_size_small_file_few_threads ... ok [INFO] [stdout] test primer::tests::test_iupac_primer ... ok [INFO] [stdout] test pipeline::tests::test_buffer_size_zero_threads ... ok [INFO] [stdout] test primer::tests::test_parse_multiple_primer_string ... ok [INFO] [stdout] test primer::tests::test_parse_pool_primers_inline ... ok [INFO] [stdout] test primer::tests::test_parse_pool_primers_single ... ok [INFO] [stdout] test primer::tests::test_parse_single_primer_string ... ok [INFO] [stdout] test primer::tests::test_parse_pool_primers_csv ... ok [INFO] [stdout] test primer::tests::test_lowercase_conversion ... ok [INFO] [stdout] test primer::tests::test_pool_primer_lowercase ... ok [INFO] [stdout] test primer::tests::test_pool_primer_new ... ok [INFO] [stdout] test primer::tests::test_warn_pool_primer_length ... ok [INFO] [stdout] test primer::tests::test_valid_primer ... ok [INFO] [stdout] test primer::tests::test_warn_primer_length_long ... ok [INFO] [stdout] test primer::tests::test_warn_primer_length_normal ... ok [INFO] [stdout] test utils::tests::test_calculate_identity ... ok [INFO] [stdout] test primer::tests::test_warn_primer_length_short ... ok [INFO] [stdout] test utils::tests::test_circular_pos_at_len ... ok [INFO] [stdout] test utils::tests::test_circular_pos_beyond_len ... ok [INFO] [stdout] test utils::tests::test_circular_pos_double_wrap ... ok [INFO] [stdout] test utils::tests::test_circular_pos_original_len_one ... ok [INFO] [stdout] test utils::tests::test_circular_pos_zero ... ok [INFO] [stdout] test utils::tests::test_circular_searchable ... ok [INFO] [stdout] test utils::tests::test_circular_to_original ... ok [INFO] [stdout] test utils::tests::test_circular_wrap ... ok [INFO] [stdout] test utils::tests::test_circular_wrap_at_boundary ... ok [INFO] [stdout] test utils::tests::test_circular_wrap_at_last ... ok [INFO] [stdout] test utils::tests::test_circular_wrap_at_zero ... ok [INFO] [stdout] test utils::tests::test_circular_wrap_original_len_one ... ok [INFO] [stdout] test utils::tests::test_circular_wrap_well_beyond ... ok [INFO] [stdout] test utils::tests::test_complement ... ok [INFO] [stdout] test utils::tests::test_complement_iupac ... ok [INFO] [stdout] test utils::tests::test_complement_lowercase ... ok [INFO] [stdout] test utils::tests::test_complement_non_ascii ... ok [INFO] [stdout] test utils::tests::test_complement_rna ... ok [INFO] [stdout] test utils::tests::test_identity_distance_equals_len ... ok [INFO] [stdout] test utils::tests::test_identity_distance_exceeds_len ... ok [INFO] [stdout] test utils::tests::test_identity_half ... ok [INFO] [stdout] test utils::tests::test_identity_one_error ... ok [INFO] [stdout] test utils::tests::test_identity_perfect ... ok [INFO] [stdout] test utils::tests::test_identity_zero_len ... ok [INFO] [stdout] test utils::tests::test_make_circular_searchable_empty ... ok [INFO] [stdout] test utils::tests::test_make_circular_searchable_max_len_one ... ok [INFO] [stdout] test utils::tests::test_make_circular_searchable_max_len_zero ... ok [INFO] [stdout] test utils::tests::test_make_circular_searchable_seq_equal_max ... ok [INFO] [stdout] test utils::tests::test_make_circular_searchable_seq_longer_than_max ... ok [INFO] [stdout] test utils::tests::test_make_circular_searchable_seq_shorter_than_max ... ok [INFO] [stdout] test pcr::tests::test_remove_duplicate_products_by_reference ... ok [INFO] [stdout] test utils::tests::test_make_circular_searchable_single_base ... ok [INFO] [stdout] test utils::tests::test_rc_all_same ... ok [INFO] [stdout] test utils::tests::test_rc_empty ... ok [INFO] [stdout] test utils::tests::test_rc_iupac_codes ... ok [INFO] [stdout] test utils::tests::test_rc_involution ... ok [INFO] [stdout] test utils::tests::test_rc_palindrome ... ok [INFO] [stdout] test utils::tests::test_rc_single_base ... ok [INFO] [stdout] test utils::tests::test_rc_lowercase ... ok [INFO] [stdout] test utils::tests::test_reverse_complement_into_basic ... ok [INFO] [stdout] test utils::tests::test_reverse_complement ... ok [INFO] [stdout] test utils::tests::test_reverse_complement_into_agrees_with_reverse_complement ... ok [INFO] [stdout] test utils::tests::test_reverse_complement_into_clears_output ... ok [INFO] [stdout] test utils::tests::test_reverse_complement_into_empty ... ok [INFO] [stdout] test utils::tests::test_reverse_complement_into_non_palindrome ... ok [INFO] [stdout] test input::tests::test_nonexistent_file_error ... ok [INFO] [stdout] test output::tests::test_validate_output_nonexistent_dir ... ok [INFO] [stdout] test primer::tests::test_invalid_character ... ok [INFO] [stdout] test primer::tests::test_invalid_primer_format ... ok [INFO] [stdout] test primer::tests::test_parse_pool_primers_empty_fields ... ok [INFO] [stdout] test primer::tests::test_parse_pool_primers_invalid_format ... ok [INFO] [stdout] test primer::tests::test_csv_row_too_few_columns ... ok [INFO] [stdout] test primer::tests::test_pool_primer_invalid_char ... ok [INFO] [stdout] test primer::tests::test_csv_empty_fields ... ok [INFO] [stdout] test primer::tests::test_parse_pool_primers_csv_too_few_columns ... ok [INFO] [stdout] test primer::tests::test_csv_too_few_header_columns ... ok [INFO] [stdout] test input::tests::test_expand_all_unrecognized_errors ... ok [INFO] [stdout] test primer::tests::test_parse_pool_primers_csv_empty_fields ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 243 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.38s [INFO] [stdout] [INFO] [stderr] Running unittests src/main.rs (/opt/rustwide/target/debug/deps/amplirust-70fe52a900c2c22c) [INFO] [stderr] Running tests/correctness_tests.rs (/opt/rustwide/target/debug/deps/correctness_tests-2db8301b9f2ae8dd) [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 9 tests [INFO] [stdout] test test_circular_wrap_product_found ... ok [INFO] [stdout] test test_circular_wrap_product_sequence_content ... ok [INFO] [stdout] test test_rc_strand_product_sequence_is_rc_of_original_region ... ok [INFO] [stdout] test test_rc_strand_product_has_correct_strand ... ok [INFO] [stdout] test test_16s_amplicon_sequence_starts_with_forward_primer ... ok [INFO] [stdout] test test_16s_primers_find_amplicon_at_expected_coordinates ... ok [INFO] [stdout] test test_multi_record_genbank_produces_per_record_results ... ok [INFO] [stdout] test test_16s_primers_from_csv_match_same_as_inline ... ok [INFO] [stdout] test test_rc_strand_coordinates_map_to_plus_strand ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 9 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.02s [INFO] [stdout] [INFO] [stderr] Running tests/error_tests.rs (/opt/rustwide/target/debug/deps/error_tests-b7967e0ff4d7bf31) [INFO] [stdout] [INFO] [stdout] running 13 tests [INFO] [stdout] test test_empty_sequence_no_panic ... ok [INFO] [stdout] test test_all_n_primer ... ok [INFO] [stdout] test test_bad_primers_csv_returns_error ... ok [INFO] [stdout] test test_empty_fasta_returns_empty_records ... ok [INFO] [stdout] test test_identity_filter_passes_same_match_with_lower_threshold ... ok [INFO] [stdout] test test_palindromic_primer ... ok [INFO] [stdout] test test_identity_filter_rejects_low_identity_match ... ok [INFO] [stdout] test test_very_short_primer_3bp ... ok [INFO] [stdout] test test_malformed_fasta_no_panic ... ok [INFO] [stdout] test test_very_long_primer_60bp ... ok [INFO] [stdout] test test_unwritable_output_returns_error ... ok [INFO] [stdout] test test_truncated_genbank_no_panic ... ok [INFO] [stdout] test test_identity_filter_exact_match_always_passes ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 13 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.19s [INFO] [stdout] [INFO] [stderr] Running tests/fuzz_regression_tests.rs (/opt/rustwide/target/debug/deps/fuzz_regression_tests-4effe90b05f975de) [INFO] [stdout] [INFO] [stdout] running 10 tests [INFO] [stdout] test regression_genbank_slice_empty ... ok [INFO] [stdout] test regression_fasta_empty ... ok [INFO] [stdout] test regression_genbank_slice_garbage ... ok [INFO] [stdout] test regression_genbank_streaming_empty ... ok [INFO] [stdout] test regression_genbank_streaming_garbage ... ok [INFO] [stdout] test regression_fasta_garbage ... ok [INFO] [stdout] test regression_primer_matcher_minimal ... ok [INFO] [stdout] test regression_primer_csv_empty ... ok [INFO] [stdout] test regression_primer_csv_garbage ... ok [INFO] [stdout] test regression_primer_matcher_all_iupac ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 10 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.08s [INFO] [stdout] [INFO] [stderr] Running tests/integration_tests.rs (/opt/rustwide/target/debug/deps/integration_tests-2b6b973d92bacda0) [INFO] [stdout] [INFO] [stdout] running 17 tests [INFO] [stdout] test test_find_product_with_mismatches ... ok [INFO] [stdout] test test_circular_wrap_product ... ok [INFO] [stdout] test test_find_simple_product ... ok [INFO] [stdout] test test_circular_genome ... ok [INFO] [stdout] test test_length_filter ... ok [INFO] [stdout] test test_load_fasta ... ok [INFO] [stdout] test test_load_primers_csv ... ok [INFO] [stdout] test test_iupac_primer_matching ... ok [INFO] [stdout] test test_rc_strand_integration ... ok [INFO] [stdout] test test_output_fasta ... ok [INFO] [stdout] test test_output_tsv ... ok [INFO] [stdout] test test_load_primers_string ... ok [INFO] [stdout] test test_gzip_output_readable ... ok [INFO] [stdout] test test_multiple_products_same_sequence ... ok [INFO] [stdout] test test_n_fraction_filtering ... ok [INFO] [stdout] test test_trim_primers ... ok [INFO] [stdout] test test_deduplication ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 17 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.04s [INFO] [stdout] [INFO] [stderr] Running tests/property_tests.rs (/opt/rustwide/target/debug/deps/property_tests-f6d562bd3f964db1) [INFO] [stdout] [INFO] [stdout] running 8 tests [INFO] [stdout] test identity_bounded_zero_one ... ok [INFO] [stdout] test circular_pos_within_bounds ... ok [INFO] [stdout] test circular_wrap_consistency ... ok [INFO] [stdout] test rc_complement_involution_single_base ... ok [INFO] [stdout] test rc_involution_dna ... ok [INFO] [stdout] test circular_extension_bounded ... ok [INFO] [stdout] test rc_involution_iupac ... ok [INFO] [stderr] Running tests/snapshot_tests.rs (/opt/rustwide/target/debug/deps/snapshot_tests-1f7e563e85544df7) [INFO] [stdout] test rc_preserves_length ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 8 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 2.12s [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] running 6 tests [INFO] [stdout] test fasta_forward_strand ... ok [INFO] [stdout] test fasta_long_sequence_wrapping ... ok [INFO] [stdout] test tsv_output_with_header ... ok [INFO] [stdout] test fasta_circular_wrap ... ok [INFO] [stdout] test fasta_rc_strand ... ok [INFO] [stdout] test tsv_multi_product ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 6 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.17s [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Running tests/validation_tests.rs (/opt/rustwide/target/debug/deps/validation_tests-da8d86b951bc8e8a) [INFO] [stdout] running 4 tests [INFO] [stdout] test validation_16s_trimmed_product_length ... ok [INFO] [stdout] test validation_16s_product_sequence_boundaries ... ok [INFO] [stdout] test validation_16s_single_copy_product_found ... ok [INFO] [stdout] test validation_16s_multi_copy_detection ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 4 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.08s [INFO] [stdout] [INFO] [stderr] Doc-tests amplirust [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] running `Command { std: "docker" "inspect" "dd8387e84238da29c7309902784ccf667f139490ce4c23e0299e312141d79bc8", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "dd8387e84238da29c7309902784ccf667f139490ce4c23e0299e312141d79bc8", kill_on_drop: false }` [INFO] [stdout] dd8387e84238da29c7309902784ccf667f139490ce4c23e0299e312141d79bc8