[INFO] fetching crate trnascan-rs 0.2.1...
[INFO] testing trnascan-rs-0.2.1 against 1.100.0-beta.1+cargoflags=--release for beta-release-1.100-2
[INFO] extracting crate trnascan-rs 0.2.1 into /workspace/builds/worker-4-tc2/source
[INFO] started tweaking crates.io crate trnascan-rs 0.2.1
[INFO] finished tweaking crates.io crate trnascan-rs 0.2.1
[INFO] tweaked toml for crates.io crate trnascan-rs 0.2.1 written to /workspace/builds/worker-4-tc2/source/Cargo.toml
[INFO] validating manifest of crates.io crate trnascan-rs 0.2.1 on toolchain 1.100.0-beta.1
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.100.0-beta.1" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate crates.io crate trnascan-rs 0.2.1 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" "+1.100.0-beta.1" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:51:12
[INFO] [stderr]    |
[INFO] [stderr] 51 | homepage = "https://github.com/necoli1822/trnascan-rs"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 56 | repository = "https://github.com/necoli1822/trnascan-rs"
[INFO] [stderr]    |              -------------------------------------------
[INFO] [stderr]    |
[INFO] [stderr]    = note: `cargo::redundant_homepage` is set to `warn` by default
[INFO] [stderr] help: consider removing `package.homepage`
[INFO] [stderr] warning: `trnascan-rs` (manifest) generated 1 warning
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-tc2/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-tc2/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] 1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4
[INFO] running `Command { std: "docker" "start" "1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4", 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" "1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4", 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" "1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "build" "--frozen" "--message-format=json" "--release", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:51:12
[INFO] [stderr]    |
[INFO] [stderr] 51 | homepage = "https://github.com/necoli1822/trnascan-rs"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 56 | repository = "https://github.com/necoli1822/trnascan-rs"
[INFO] [stderr]    |              -------------------------------------------
[INFO] [stderr]    |
[INFO] [stderr]    = note: `cargo::redundant_homepage` is set to `warn` by default
[INFO] [stderr] help: consider removing `package.homepage`
[INFO] [stderr] warning: `trnascan-rs` (manifest) generated 1 warning
[INFO] [stderr]    Compiling simd-adler32 v0.3.9
[INFO] [stderr]    Compiling syn v2.0.118
[INFO] [stderr]    Compiling match_cfg v0.1.0
[INFO] [stderr]    Compiling chrono v0.4.45
[INFO] [stderr]    Compiling hostname v0.3.1
[INFO] [stderr]    Compiling miniz_oxide v0.8.9
[INFO] [stderr]    Compiling flate2 v1.1.9
[INFO] [stderr]    Compiling thiserror-impl v1.0.69
[INFO] [stderr]    Compiling clap_derive v4.6.1
[INFO] [stderr]    Compiling thiserror v1.0.69
[INFO] [stderr]    Compiling infernox v0.2.0
[INFO] [stderr]    Compiling clap v4.6.1
[INFO] [stderr]    Compiling trnascan-rs v0.2.1 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished `release` profile [optimized] target(s) in 2m 19s
[INFO] running `Command { std: "docker" "inspect" "1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4", 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" "1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "test" "--frozen" "--no-run" "--message-format=json" "--release", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:51:12
[INFO] [stderr]    |
[INFO] [stderr] 51 | homepage = "https://github.com/necoli1822/trnascan-rs"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 56 | repository = "https://github.com/necoli1822/trnascan-rs"
[INFO] [stderr]    |              -------------------------------------------
[INFO] [stderr]    |
[INFO] [stderr]    = note: `cargo::redundant_homepage` is set to `warn` by default
[INFO] [stderr] help: consider removing `package.homepage`
[INFO] [stderr] warning: `trnascan-rs` (manifest) generated 1 warning
[INFO] [stderr]    Compiling trnascan-rs v0.2.1 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unused variable: `end`
[INFO] [stdout]     --> src/cm_scan/mod.rs:1237:33
[INFO] [stdout]      |
[INFO] [stdout] 1237 |         let (intron_seq, start, end) = scan.find_intron(seq, 4, 20);
[INFO] [stdout]      |                                 ^^^ help: if this is intentional, prefix it with an underscore: `_end`
[INFO] [stdout]      |
[INFO] [stdout]      = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `release` profile [optimized] target(s) in 18.59s
[INFO] running `Command { std: "docker" "inspect" "1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4", 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" "1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "test" "--frozen" "--release", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:51:12
[INFO] [stderr]    |
[INFO] [stderr] 51 | homepage = "https://github.com/necoli1822/trnascan-rs"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 56 | repository = "https://github.com/necoli1822/trnascan-rs"
[INFO] [stderr]    |              -------------------------------------------
[INFO] [stderr]    |
[INFO] [stderr]    = note: `cargo::redundant_homepage` is set to `warn` by default
[INFO] [stderr] help: consider removing `package.homepage`
[INFO] [stderr] warning: `trnascan-rs` (manifest) generated 1 warning
[INFO] [stderr] warning: unused variable: `end`
[INFO] [stderr]     --> src/cm_scan/mod.rs:1237:33
[INFO] [stderr]      |
[INFO] [stderr] 1237 |         let (intron_seq, start, end) = scan.find_intron(seq, 4, 20);
[INFO] [stderr]      |                                 ^^^ help: if this is intentional, prefix it with an underscore: `_end`
[INFO] [stderr]      |
[INFO] [stderr]      = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stderr] 
[INFO] [stderr] warning: `trnascan-rs` (lib test) generated 1 warning (run `cargo fix --lib -p trnascan-rs --tests` to apply 1 suggestion)
[INFO] [stderr]     Finished `release` profile [optimized] target(s) in 0.10s
[INFO] [stderr]      Running unittests src/lib.rs (/opt/rustwide/target/release/build/trnascan-rs/e984d51f4c7c5f41/out/trnascan_rs-e984d51f4c7c5f41)
[INFO] [stdout] 
[INFO] [stdout] running 260 tests
[INFO] [stdout] test arrays::tests::test_array_trna_filter_by_isotype ... ok
[INFO] [stdout] test arrays::tests::test_array_cmscan_new ... ok
[INFO] [stdout] test arrays::tests::test_array_trna_new ... ok
[INFO] [stdout] test arrays::tests::test_array_trna_sort_by_position ... ok
[INFO] [stdout] test cm_funcs::tests::test_base_to_index ... ok
[INFO] [stdout] test cm_funcs::tests::test_cm_from_gparse ... ok
[INFO] [stdout] test cm_funcs::tests::test_copy_cm ... ok
[INFO] [stdout] test cm_funcs::tests::test_guide_tree ... ok
[INFO] [stdout] test cm_funcs::tests::test_is_gap_char ... ok
[INFO] [stdout] test arrays::tests::test_array_trna_push_get ... ok
[INFO] [stdout] test cm_funcs::tests::test_normalize_singlet ... ok
[INFO] [stdout] test cm_funcs::tests::test_number_master_trace ... ok
[INFO] [stdout] test cm_funcs::tests::test_prob_to_log_odds ... ok
[INFO] [stdout] test cm_funcs::tests::test_structure_stacks_multiple ... ok
[INFO] [stdout] test cm_funcs::tests::test_structure_stacks_nested ... ok
[INFO] [stdout] test cm_funcs::tests::test_trace_pool ... ok
[INFO] [stdout] test cm_funcs::tests::test_structure_stacks_simple ... ok
[INFO] [stdout] test cm_funcs::tests::test_verify_cm_empty ... ok
[INFO] [stdout] test cm_funcs::tests::test_verify_cm_valid_root ... ok
[INFO] [stdout] test cm_funcs::tests::test_zero_cm ... ok
[INFO] [stdout] test cm_scan::decode::tests::test_sec_to_sup_downgrade ... ok
[INFO] [stdout] test cm_scan::decode::tests::test_ser_fixture_normalization ... ok
[INFO] [stdout] test cm_scan::decode::tests::test_trans_map_key_examples ... ok
[INFO] [stdout] test cm_scan::tests::test_cmscan_options_default ... ok
[INFO] [stdout] test cm_scan::tests::test_cmsearch_hit_passes_cutoff ... ok
[INFO] [stdout] test cm_scan::tests::test_cmsearch_hit_new ... ok
[INFO] [stdout] test cm_scan::decode::tests::test_all_fixtures_decode ... ok
[INFO] [stdout] test arrays::tests::test_array_cmscan_merge ... ok
[INFO] [stdout] test cm_scan::tests::test_parse_tblout_line ... ok
[INFO] [stdout] test cm_scan::tests::test_find_intron ... ok
[INFO] [stdout] test config::tests::test_default_config ... ok
[INFO] [stdout] test config::tests::test_get_cm_path ... ok
[INFO] [stdout] test config::tests::test_load_from_file ... ok
[INFO] [stdout] test config::tests::test_parse_config ... ok
[INFO] [stdout] test cm_scan::tests::test_find_anticodon_regex ... ok
[INFO] [stdout] test config::tests::test_variable_substitution ... ok
[INFO] [stdout] test core::save::tests::test_write_read_binary_roundtrip ... ok
[INFO] [stdout] test core::scanner::fix_isotype_tests::fmet_branch2_no_fire_when_not_partner ... ok
[INFO] [stdout] test arrays::tests::test_array_trna_deduplicate ... ok
[INFO] [stdout] test core::scanner::fix_isotype_tests::fmet_branch1_minus_prepend ... ok
[INFO] [stdout] test core::scanner::fix_isotype_tests::fmet_branch1_plus_prepend ... ok
[INFO] [stdout] test arrays::tests::test_array_cmscan_filter_by_score ... ok
[INFO] [stdout] test arrays::tests::test_array_cmscan_best_hit ... ok
[INFO] [stdout] test core::scanner::fix_isotype_tests::fmet_branch2_stem5_remove ... ok
[INFO] [stdout] test cm_scan::tests::test_cm_file_paths ... ok
[INFO] [stdout] test core::scanner::fix_isotype_tests::his_no_fire_bad_pair ... ok
[INFO] [stdout] test core::scanner::fix_isotype_tests::his_remove_bulge ... ok
[INFO] [stdout] test eufind::pavesi::tests::test_int_encode_seq ... ok
[INFO] [stdout] test eufind::pavesi::tests::test_get_abdist_weight ... ok
[INFO] [stdout] test eufind::pavesi::tests::test_trna_info_new ... ok
[INFO] [stdout] test genetic_code::tests::test_anticodon_to_codon ... ok
[INFO] [stdout] test genetic_code::tests::test_isotype_from_anticodon ... ok
[INFO] [stdout] test genetic_code::tests::test_selenocysteine ... ok
[INFO] [stdout] test genetic_code::tests::test_standard_code ... ok
[INFO] [stdout] test genetic_code::tests::test_suppressor ... ok
[INFO] [stdout] test core::scanner::fix_isotype_tests::fmet_no_fire_wrong_isotype_or_score ... ok
[INFO] [stdout] test core::save::tests::test_write_read_text_roundtrip ... ok
[INFO] [stdout] test genetic_code::tests::test_vertebrate_mito ... ok
[INFO] [stdout] test isotype::anticodon::tests::test_basic_anticodon_mapping ... ok
[INFO] [stdout] test isotype::anticodon::tests::test_special_isotypes ... ok
[INFO] [stdout] test isotype::anticodon::tests::test_suppressor_detection ... ok
[INFO] [stdout] test isotype::anticodon::tests::test_get_anticodons_for_isotype ... ok
[INFO] [stdout] test isotype::anticodon::tests::test_selenocysteine_detection ... ok
[INFO] [stdout] test maxmodel::emission::tests::test_dot_score ... ok
[INFO] [stdout] test isotype::anticodon::tests::test_unknown_anticodon ... ok
[INFO] [stdout] test isotype::anticodon::tests::test_variable_arm_detection ... ok
[INFO] [stdout] test log::tests::test_simple_logger ... ok
[INFO] [stdout] test log::tests::test_logfile_creation ... ok
[INFO] [stdout] test log::tests::test_logfile_no_file ... ok
[INFO] [stdout] test maxmodel::emission::tests::test_is_gap ... ok
[INFO] [stdout] test maxmodel::emission::tests::test_pair_emissioncost ... ok
[INFO] [stdout] test maxmodel::emission::tests::test_singlet_emissions ... ok
[INFO] [stdout] test maxmodel::emission::tests::test_transpose_alignment ... ok
[INFO] [stdout] test maxmodel::emission::tests::test_symbol_index ... ok
[INFO] [stdout] test maxmodel::matrix::tests::test_maxmx_allocation ... ok
[INFO] [stdout] test maxmodel::matrix::tests::test_maxmx_cell_initialization ... ok
[INFO] [stdout] test maxmodel::matrix::tests::test_maxmx_get_mut ... ok
[INFO] [stdout] test maxmodel::matrix::tests::test_maxmx_traceback_pointers ... ok
[INFO] [stdout] test maxmodel::prior::tests::test_prior_trna ... ok
[INFO] [stdout] test maxmodel::prior::tests::test_prior_new ... ok
[INFO] [stdout] test maxmodel::prior::tests::test_probify_pair ... ok
[INFO] [stdout] test maxmodel::prior::tests::test_probify_singlet ... ok
[INFO] [stdout] test maxmodel::recursion::tests::test_recurse_maxmx_simple ... ok
[INFO] [stdout] test maxmodel::prior::tests::test_probify_transition ... ok
[INFO] [stdout] test maxmodel::tests::test_maxmodelmaker_empty_alignment ... ok
[INFO] [stdout] test maxmodel::tests::test_maxmodelmaker_length_mismatch ... ok
[INFO] [stdout] test maxmodel::tests::test_maxmodelmaker_simple ... ok
[INFO] [stdout] test maxmodel::tests::test_maxmodelmaker_trna_prior ... ok
[INFO] [stdout] test maxmodel::tests::test_maxmodelmaker_weight_mismatch ... ok
[INFO] [stdout] test maxmodel::tests::test_maxmodelmaker_with_gaps ... ok
[INFO] [stdout] test maxmodel::tests::test_uniform_weights ... ok
[INFO] [stdout] test maxmodel::traceback::tests::test_master_trace_count_nodes ... ok
[INFO] [stdout] test maxmodel::traceback::tests::test_master_trace_new ... ok
[INFO] [stdout] test maxmodel::traceback::tests::test_maxmx_to_cm_node ... ok
[INFO] [stdout] test maxmodel::traceback::tests::test_trace_maxmx ... ok
[INFO] [stdout] test maxmodel::transition::tests::test_to_bifurc_transtable ... ok
[INFO] [stdout] test maxmodel::transition::tests::test_to_matl_transtable ... ok
[INFO] [stdout] test maxmodel::types::tests::test_maxmx_node_indices ... ok
[INFO] [stdout] test maxmodel::types::tests::test_maxmxcell_new ... ok
[INFO] [stdout] test maxmodel::types::tests::test_transtable_operations ... ok
[INFO] [stdout] test options::tests::test_cm_mode ... ok
[INFO] [stdout] test maxmodel::transition::tests::test_to_matr_transtable ... ok
[INFO] [stdout] test maxmodel::transition::tests::test_assign_cell ... ok
[INFO] [stdout] test maxmodel::transition::tests::test_frombeginl_transtable ... ok
[INFO] [stdout] test options::tests::test_mode_queries ... ok
[INFO] [stdout] test options::tests::test_search_mode_parsing ... ok
[INFO] [stdout] test maxmodel::types::tests::test_singlet_pairwise_operations ... ok
[INFO] [stdout] test maxmodel::traceback::tests::test_master_trace_number_nodes ... ok
[INFO] [stdout] test options::tests::test_set_out_file ... ok
[INFO] [stdout] test options::tests::test_default_options ... ok
[INFO] [stdout] test options::tests::test_validation ... ok
[INFO] [stdout] test sequence::tests::test_clean ... ok
[INFO] [stdout] test sequence::tests::test_subseq ... ok
[INFO] [stdout] test sequence::tests::test_to_dna ... ok
[INFO] [stdout] test sequence::tests::test_to_fasta ... ok
[INFO] [stdout] test options::tests::test_mito_model ... ok
[INFO] [stdout] test sequence::tests::test_to_rna ... ok
[INFO] [stdout] test sprinzl::tests::test_position_types ... ok
[INFO] [stdout] test sprinzl::tests::test_regions ... ok
[INFO] [stdout] test sprinzl::tests::test_sprinzl_positions ... ok
[INFO] [stdout] test sprinzl::tests::test_universal_bases ... ok
[INFO] [stdout] test sequence::tests::test_sequence_new ... ok
[INFO] [stdout] test sequence::tests::test_from_fasta ... ok
[INFO] [stdout] test sequence::tests::test_reverse_complement ... ok
[INFO] [stdout] test sprinzl::tests::test_stem_codes ... ok
[INFO] [stdout] test sequence::tests::test_gc_content ... ok
[INFO] [stdout] test squid::iupac::tests::test_is_gap ... ok
[INFO] [stdout] test squid::iupac::tests::test_is_seq_char ... ok
[INFO] [stdout] test squid::iupac::tests::test_seq_type_dna ... ok
[INFO] [stdout] test squid::iupac::tests::test_seq_type_rna ... ok
[INFO] [stdout] test squid::iupac::tests::test_to_dna ... ok
[INFO] [stdout] test squid::iupac::tests::test_to_rna ... ok
[INFO] [stdout] test squid::sqio::tests::test_clean_seq ... ok
[INFO] [stdout] test squid::sqio::tests::test_digitize_seq ... ok
[INFO] [stdout] test squid::sqio::tests::test_format_fasta ... ok
[INFO] [stdout] test squid::iupac::tests::test_seq_type_empty ... ok
[INFO] [stdout] test squid::iupac::tests::test_seq_type_protein ... ok
[INFO] [stdout] test squid::sqio::tests::test_detect_format_fasta ... FAILED
[INFO] [stdout] test squid::sqio::tests::test_detect_format_embl ... FAILED
[INFO] [stdout] test squid::sqio::tests::test_detect_format_genbank ... FAILED
[INFO] [stdout] test squid::sqio::tests::test_rev_complement ... ok
[INFO] [stdout] test squid::sqio::tests::test_seq_file_format ... ok
[INFO] [stdout] test squid::sqio::tests::test_symbol_index ... ok
[INFO] [stdout] test squid::types::tests::test_sqinfo_truncation ... ok
[INFO] [stdout] test squid::types::tests::test_sqinfo_desc_append ... ok
[INFO] [stdout] test squid::types::tests::test_sqinfo_flags ... ok
[INFO] [stdout] test ss::tests::test_validate_structure ... ok
[INFO] [stdout] test squid::sqio::tests::test_gcg_checksum ... ok
[INFO] [stdout] test squid::sqio::tests::test_is_gap_char ... ok
[INFO] [stdout] test squid::sqio::tests::test_seq_to_dna_rna ... ok
[INFO] [stdout] test squid::sqio::tests::test_undigitize_seq ... ok
[INFO] [stdout] test stats::tests::test_stats_counters ... ok
[INFO] [stdout] test structs::tests::test_align_list ... ok
[INFO] [stdout] test stats::tests::test_stats_file_name ... ok
[INFO] [stdout] test stats::tests::test_stats_new ... ok
[INFO] [stdout] test structs::tests::test_alloc_2d_array ... ok
[INFO] [stdout] test stats::tests::test_stats_base_counts ... ok
[INFO] [stdout] test stats::tests::test_stats_clear ... ok
[INFO] [stdout] test structs::tests::test_alloc_3d_array ... ok
[INFO] [stdout] test structs::tests::test_fill_2d_array ... ok
[INFO] [stdout] test structs::tests::test_copy_2d_array ... ok
[INFO] [stdout] test structs::tests::test_statetype_index ... ok
[INFO] [stdout] test structs::tests::test_unique_statetype ... ok
[INFO] [stdout] test structure::konings::tests::test_khs2ct_ignore_pseudoknots ... ok
[INFO] [stdout] test structure::konings::tests::test_khs2ct_errors ... ok
[INFO] [stdout] test structure::konings::tests::test_is_rna_complement_watson_crick ... ok
[INFO] [stdout] test structure::konings::tests::test_is_rna_complement_wobble ... ok
[INFO] [stdout] test structure::konings::tests::test_khs2ct_simple ... ok
[INFO] [stdout] test structure::konings::tests::test_trace2khs_multiple_pairs ... ok
[INFO] [stdout] test structure::konings::tests::test_khs2ct_nested ... ok
[INFO] [stdout] test structure::konings::tests::test_khs2ct_pseudoknots ... ok
[INFO] [stdout] test trna::tests::test_base_pair_checks ... ok
[INFO] [stdout] test structure::konings::tests::test_is_gap ... ok
[INFO] [stdout] test structure::konings::tests::test_trace2khs_simple ... ok
[INFO] [stdout] test stats::tests::test_write_firstpass_stats ... ok
[INFO] [stdout] test trna::tests::test_intron_management ... ok
[INFO] [stdout] test trna::tests::test_json_roundtrip ... ok
[INFO] [stdout] test trna::tests::test_category ... ok
[INFO] [stdout] test structure::konings::tests::test_trace2khs_watson_crick_only ... ok
[INFO] [stdout] test trna::tests::test_non_canonical ... ok
[INFO] [stdout] test trna::tests::test_strand_conversion ... ok
[INFO] [stdout] test trna::tests::test_to_bed ... ok
[INFO] [stdout] test trna::tests::test_to_fasta ... ok
[INFO] [stdout] test trna::tests::test_trna_new ... ok
[INFO] [stdout] test trna::tests::test_truncation ... ok
[INFO] [stdout] test trna::tests::test_trna_len ... ok
[INFO] [stdout] test trna::tests::test_type2_trna ... ok
[INFO] [stdout] test trna::tests::test_domain_model ... ok
[INFO] [stdout] test trna::tests::test_mature_trna ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_encode_anticodon_aac ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_encode_anticodon_ambiguous ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_anticodon_to_aa ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_encode_anticodon_ttt ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_anticodon_to_aa_stop_codons ... ok
[INFO] [stdout] test trna::tests::test_tsv_roundtrip ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_reverse_complement_ambiguous ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_encode_anticodon_aaa ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_is_nucleotide ... ok
[INFO] [stdout] test types::cm::tests::test_cm_node_access ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_reverse_complement_longer ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_reverse_complement_mixed ... ok
[INFO] [stdout] test types::cm::tests::test_node_creation ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_base_to_index ... ok
[INFO] [stdout] test trnascan::seq_utils::tests::test_reverse_complement_simple ... ok
[INFO] [stdout] test types::cm::tests::test_cm_creation ... ok
[INFO] [stdout] test stats::tests::test_stats_timers ... ok
[INFO] [stdout] test types::constants::tests::test_node_types ... ok
[INFO] [stdout] test types::cm::tests::test_node_sizes ... ok
[INFO] [stdout] test types::constants::tests::test_unique_state_flags ... ok
[INFO] [stdout] test types::constants::tests::test_ilog2_basic ... ok
[INFO] [stdout] test types::constants::tests::test_node_alias ... ok
[INFO] [stdout] test types::constants::tests::test_state_indices ... ok
[INFO] [stdout] test types::constants::tests::test_state_aliases ... ok
[INFO] [stdout] test types::state::tests::test_istate_creation ... ok
[INFO] [stdout] test types::state::tests::test_istate_vs_pstate_bifr ... ok
[INFO] [stdout] test types::state::tests::test_istate_emissions ... ok
[INFO] [stdout] test types::state::tests::test_pstate_creation ... ok
[INFO] [stdout] test types::state::tests::test_pstate_emissions ... ok
[INFO] [stdout] test types::state::tests::test_state_type_checking ... ok
[INFO] [stdout] test types::trace::tests::test_init_trace ... ok
[INFO] [stdout] test types::trace::tests::test_trace_depth ... ok
[INFO] [stdout] test types::trace::tests::test_trace_leaf ... ok
[INFO] [stdout] test types::trace::tests::test_trace_stack_basic ... ok
[INFO] [stdout] test types::trace::tests::test_trace_traverse ... ok
[INFO] [stdout] test types::trace::tests::test_trace_tree_structure ... ok
[INFO] [stdout] test types::trace::tests::test_trace_type_checking ... ok
[INFO] [stdout] test types::trace::tests::test_trace_with_left_child ... ok
[INFO] [stdout] test util::sre_math::tests::test_dnorm ... ok
[INFO] [stdout] test util::sre_math::tests::test_dscale ... ok
[INFO] [stdout] test util::sre_math::tests::test_fnorm ... ok
[INFO] [stdout] test util::sre_math::tests::test_sre_random_basic ... ok
[INFO] [stdout] test util::sre_math::tests::test_sre_random_reproducible ... ok
[INFO] [stdout] test utils::tests::test_aa_code_conversion ... ok
[INFO] [stdout] test utils::tests::test_complement ... ok
[INFO] [stdout] test utils::tests::test_pad_num ... ok
[INFO] [stdout] test utils::tests::test_pad_string ... ok
[INFO] [stdout] test utils::tests::test_reverse_complement ... ok
[INFO] [stdout] test utils::tests::test_seg_overlap ... ok
[INFO] [stdout] test utils::tests::test_validate_anticodon ... ok
[INFO] [stdout] test types::trace::tests::test_trace_bifurc ... ok
[INFO] [stdout] test types::trace::tests::test_trace_count_nodes ... ok
[INFO] [stdout] test types::trace::tests::test_trace_span ... ok
[INFO] [stdout] test viterbi::dbscan::tests::test_allocate_mx_dimensions ... ok
[INFO] [stdout] test viterbi::model::tests::test_copy_singlet_emissions_biased ... ok
[INFO] [stdout] test viterbi::model::tests::test_copy_state_transitions ... ok
[INFO] [stdout] test viterbi::model::tests::test_fill_state ... ok
[INFO] [stdout] test viterbi::model::tests::test_rearrange_simple_cm ... ok
[INFO] [stdout] test viterbi::small::tests::test_allocate_mx_dimensions ... ok
[INFO] [stdout] test viterbi::small::tests::test_pack_unpack_tb ... ok
[INFO] [stdout] test viterbi::dbscan::tests::test_scan_hit_struct ... ok
[INFO] [stdout] test viterbi::small::tests::test_symbol_index ... ok
[INFO] [stdout] test viterbi::dbscan::tests::test_symbol_index ... ok
[INFO] [stdout] test viterbi::viterbi::tests::test_allocate_mx ... ok
[INFO] [stdout] test viterbi::viterbi::tests::test_symbol_index ... ok
[INFO] [stdout] test viterbi::dbscan::tests::test_wraparound_logic ... ok
[INFO] [stdout] test types::state::tests::test_state_array_sizes ... ok
[INFO] [stdout] test viterbi::model::tests::test_copy_singlet_emissions ... ok
[INFO] [stdout] test types::trace::tests::test_collect_emissions ... ok
[INFO] [stdout] test viterbi::viterbi::tests::test_prepare_sequence ... ok
[INFO] [stdout] test maxmodel::tests::test_maxmodelmaker_longer_alignment ... ok
[INFO] [stdout] 
[INFO] [stdout] failures:
[INFO] [stdout] 
[INFO] [stdout] ---- squid::sqio::tests::test_detect_format_fasta stdout ----
[INFO] [stdout] 
[INFO] [stdout] thread 'squid::sqio::tests::test_detect_format_fasta' (616) panicked at src/squid/sqio.rs:1026:76:
[INFO] [stdout] called `Result::unwrap()` on an `Err` value: Os { code: 2, kind: NotFound, message: "No such file or directory" }
[INFO] [stdout] stack backtrace:
[INFO] [stdout]    0:     0x5f76e82f3d41 - <<std[617be2ca0a6fd877]::sys::backtrace::BacktraceLock>::print::DisplayBacktrace as core[a373ad73a504971]::fmt::Display>::fmt
[INFO] [stdout]    1:     0x5f76e830c30a - core[a373ad73a504971]::fmt::write
[INFO] [stdout]    2:     0x5f76e82f81bc - <alloc[2e1b2a31b91974c5]::vec::Vec<u8> as core[a373ad73a504971]::io::write::Write>::write_fmt
[INFO] [stdout]    3:     0x5f76e82ce266 - std[617be2ca0a6fd877]::panicking::default_hook::{closure#0}
[INFO] [stdout]    4:     0x5f76e82eb149 - std[617be2ca0a6fd877]::panicking::default_hook
[INFO] [stdout]    5:     0x5f76e81b74b0 - test[aada8e7e76ba119b]::test_main_inner::{closure#0}
[INFO] [stdout]    6:     0x5f76e82eb302 - std[617be2ca0a6fd877]::panicking::panic_with_hook
[INFO] [stdout]    7:     0x5f76e82ce312 - std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}
[INFO] [stdout]    8:     0x5f76e82c6d79 - std[617be2ca0a6fd877]::sys::backtrace::__rust_end_short_backtrace::<std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}, !>
[INFO] [stdout]    9:     0x5f76e82cef1d - __rustc[ea4f61d10b84890b]::rust_begin_unwind
[INFO] [stdout]   10:     0x5f76e830caec - core[a373ad73a504971]::panicking::panic_fmt
[INFO] [stdout]   11:     0x5f76e830c8c2 - core[a373ad73a504971]::result::unwrap_failed
[INFO] [stdout]   12:     0x5f76e81879c1 - <trnascan_rs[4c5be71c3fa4c458]::squid::sqio::tests::test_detect_format_fasta::{closure#0} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once
[INFO] [stdout]   13:     0x5f76e81aa8fb - test[aada8e7e76ba119b]::__rust_begin_short_backtrace::<core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>, fn() -> core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>>
[INFO] [stdout]   14:     0x5f76e81b7ad5 - test[aada8e7e76ba119b]::run_test::{closure#0}
[INFO] [stdout]   15:     0x5f76e81b13c4 - std[617be2ca0a6fd877]::sys::backtrace::__rust_begin_short_backtrace::<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>
[INFO] [stdout]   16:     0x5f76e81bab62 - <std[617be2ca0a6fd877]::thread::lifecycle::spawn_unchecked<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>::{closure#1} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once::{shim:vtable#0}
[INFO] [stdout]   17:     0x5f76e82f2eff - <std[617be2ca0a6fd877]::sys::thread::unix::Thread>::new::thread_start
[INFO] [stdout]   18:     0x7a35e29ffdfa - <unknown>
[INFO] [stdout]   19:     0x7a35e2a933d4 - clone
[INFO] [stdout]   20:                0x0 - <unknown>
[INFO] [stdout] 
[INFO] [stdout] ---- squid::sqio::tests::test_detect_format_embl stdout ----
[INFO] [stdout] 
[INFO] [stdout] thread 'squid::sqio::tests::test_detect_format_embl' (615) panicked at src/squid/sqio.rs:1038:75:
[INFO] [stdout] called `Result::unwrap()` on an `Err` value: Os { code: 2, kind: NotFound, message: "No such file or directory" }
[INFO] [stdout] stack backtrace:
[INFO] [stdout]    0:     0x5f76e82f3d41 - <<std[617be2ca0a6fd877]::sys::backtrace::BacktraceLock>::print::DisplayBacktrace as core[a373ad73a504971]::fmt::Display>::fmt
[INFO] [stdout]    1:     0x5f76e830c30a - core[a373ad73a504971]::fmt::write
[INFO] [stdout]    2:     0x5f76e82f81bc - <alloc[2e1b2a31b91974c5]::vec::Vec<u8> as core[a373ad73a504971]::io::write::Write>::write_fmt
[INFO] [stdout]    3:     0x5f76e82ce266 - std[617be2ca0a6fd877]::panicking::default_hook::{closure#0}
[INFO] [stdout]    4:     0x5f76e82eb149 - std[617be2ca0a6fd877]::panicking::default_hook
[INFO] [stdout]    5:     0x5f76e81b74b0 - test[aada8e7e76ba119b]::test_main_inner::{closure#0}
[INFO] [stdout]    6:     0x5f76e82eb302 - std[617be2ca0a6fd877]::panicking::panic_with_hook
[INFO] [stdout]    7:     0x5f76e82ce312 - std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}
[INFO] [stdout]    8:     0x5f76e82c6d79 - std[617be2ca0a6fd877]::sys::backtrace::__rust_end_short_backtrace::<std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}, !>
[INFO] [stdout]    9:     0x5f76e82cef1d - __rustc[ea4f61d10b84890b]::rust_begin_unwind
[INFO] [stdout]   10:     0x5f76e830caec - core[a373ad73a504971]::panicking::panic_fmt
[INFO] [stdout]   11:     0x5f76e830c8c2 - core[a373ad73a504971]::result::unwrap_failed
[INFO] [stdout]   12:     0x5f76e8187911 - <trnascan_rs[4c5be71c3fa4c458]::squid::sqio::tests::test_detect_format_embl::{closure#0} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once
[INFO] [stdout]   13:     0x5f76e81aa8fb - test[aada8e7e76ba119b]::__rust_begin_short_backtrace::<core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>, fn() -> core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>>
[INFO] [stdout]   14:     0x5f76e81b7ad5 - test[aada8e7e76ba119b]::run_test::{closure#0}
[INFO] [stdout]   15:     0x5f76e81b13c4 - std[617be2ca0a6fd877]::sys::backtrace::__rust_begin_short_backtrace::<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>
[INFO] [stdout]   16:     0x5f76e81bab62 - <std[617be2ca0a6fd877]::thread::lifecycle::spawn_unchecked<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>::{closure#1} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once::{shim:vtable#0}
[INFO] [stdout]   17:     0x5f76e82f2eff - <std[617be2ca0a6fd877]::sys::thread::unix::Thread>::new::thread_start
[INFO] [stdout]   18:     0x7a35e29ffdfa - <unknown>
[INFO] [stdout]   19:     0x7a35e2a933d4 - clone
[INFO] [stdout]   20:                0x0 - <unknown>
[INFO] [stdout] 
[INFO] [stdout] ---- squid::sqio::tests::test_detect_format_genbank stdout ----
[INFO] [stdout] 
[INFO] [stdout] thread 'squid::sqio::tests::test_detect_format_genbank' (617) panicked at src/squid/sqio.rs:1032:73:
[INFO] [stdout] called `Result::unwrap()` on an `Err` value: Os { code: 2, kind: NotFound, message: "No such file or directory" }
[INFO] [stdout] stack backtrace:
[INFO] [stdout]    0:     0x5f76e82f3d41 - <<std[617be2ca0a6fd877]::sys::backtrace::BacktraceLock>::print::DisplayBacktrace as core[a373ad73a504971]::fmt::Display>::fmt
[INFO] [stdout]    1:     0x5f76e830c30a - core[a373ad73a504971]::fmt::write
[INFO] [stdout]    2:     0x5f76e82f81bc - <alloc[2e1b2a31b91974c5]::vec::Vec<u8> as core[a373ad73a504971]::io::write::Write>::write_fmt
[INFO] [stdout]    3:     0x5f76e82ce266 - std[617be2ca0a6fd877]::panicking::default_hook::{closure#0}
[INFO] [stdout]    4:     0x5f76e82eb149 - std[617be2ca0a6fd877]::panicking::default_hook
[INFO] [stdout]    5:     0x5f76e81b74b0 - test[aada8e7e76ba119b]::test_main_inner::{closure#0}
[INFO] [stdout]    6:     0x5f76e82eb302 - std[617be2ca0a6fd877]::panicking::panic_with_hook
[INFO] [stdout]    7:     0x5f76e82ce312 - std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}
[INFO] [stdout]    8:     0x5f76e82c6d79 - std[617be2ca0a6fd877]::sys::backtrace::__rust_end_short_backtrace::<std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}, !>
[INFO] [stdout]    9:     0x5f76e82cef1d - __rustc[ea4f61d10b84890b]::rust_begin_unwind
[INFO] [stdout]   10:     0x5f76e830caec - core[a373ad73a504971]::panicking::panic_fmt
[INFO] [stdout]   11:     0x5f76e830c8c2 - core[a373ad73a504971]::result::unwrap_failed
[INFO] [stdout]   12:     0x5f76e8187a71 - <trnascan_rs[4c5be71c3fa4c458]::squid::sqio::tests::test_detect_format_genbank::{closure#0} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once
[INFO] [stdout]   13:     0x5f76e81aa8fb - test[aada8e7e76ba119b]::__rust_begin_short_backtrace::<core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>, fn() -> core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>>
[INFO] [stdout]   14:     0x5f76e81b7ad5 - test[aada8e7e76ba119b]::run_test::{closure#0}
[INFO] [stdout]   15:     0x5f76e81b13c4 - std[617be2ca0a6fd877]::sys::backtrace::__rust_begin_short_backtrace::<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>
[INFO] [stdout]   16:     0x5f76e81bab62 - <std[617be2ca0a6fd877]::thread::lifecycle::spawn_unchecked<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>::{closure#1} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once::{shim:vtable#0}
[INFO] [stdout]   17:     0x5f76e82f2eff - <std[617be2ca0a6fd877]::sys::thread::unix::Thread>::new::thread_start
[INFO] [stdout]   18:     0x7a35e29ffdfa - <unknown>
[INFO] [stdout]   19:     0x7a35e2a933d4 - clone
[INFO] [stdout]   20:                0x0 - <unknown>
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] failures:
[INFO] [stdout]     squid::sqio::tests::test_detect_format_embl
[INFO] [stdout]     squid::sqio::tests::test_detect_format_fasta
[INFO] [stdout]     squid::sqio::tests::test_detect_format_genbank
[INFO] [stdout] 
[INFO] [stdout] test result: FAILED. 257 passed; 3 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.12s
[INFO] [stdout] 
[INFO] [stderr] error: test failed, to rerun pass `--lib`
[INFO] running `Command { std: "docker" "inspect" "1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4", kill_on_drop: false }`
[INFO] [stdout] 1c7913593a4fa31be02735c0f6866635938bffa227ace9b649efc24123750ab4
