[INFO] fetching crate rsomics-fastq-preprocess 0.1.1...
[INFO] testing rsomics-fastq-preprocess-0.1.1 against 1.100.0-beta.1 for beta-1.100-2
[INFO] extracting crate rsomics-fastq-preprocess 0.1.1 into /workspace/builds/worker-1-tc2/source
[INFO] started tweaking crates.io crate rsomics-fastq-preprocess 0.1.1
[INFO] removed 0 missing tests
[INFO] finished tweaking crates.io crate rsomics-fastq-preprocess 0.1.1
[INFO] tweaked toml for crates.io crate rsomics-fastq-preprocess 0.1.1 written to /workspace/builds/worker-1-tc2/source/Cargo.toml
[INFO] validating manifest of crates.io crate rsomics-fastq-preprocess 0.1.1 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 rsomics-fastq-preprocess 0.1.1 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:68:12
[INFO] [stderr]    |
[INFO] [stderr] 68 | homepage = "https://github.com/omics-rust/rsomics-fastq-preprocess"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 73 | repository = "https://github.com/omics-rust/rsomics-fastq-preprocess"
[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: `rsomics-fastq-preprocess` (manifest) generated 1 warning
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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@sha256:3111399a4047eeb3a02b7a90e478d715f38a8c6669b5c4b49d30a17385265909" "sleep" "infinity", kill_on_drop: false }`
[INFO] [stdout] e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384
[INFO] running `Command { std: "docker" "start" "e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384", 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" "e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384" "/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" "e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384", 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" "e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:68:12
[INFO] [stderr]    |
[INFO] [stderr] 68 | homepage = "https://github.com/omics-rust/rsomics-fastq-preprocess"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 73 | repository = "https://github.com/omics-rust/rsomics-fastq-preprocess"
[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: `rsomics-fastq-preprocess` (manifest) generated 1 warning
[INFO] [stderr]    Compiling rustix v1.1.4
[INFO] [stderr]    Compiling bitflags v2.13.1
[INFO] [stderr]    Compiling utf8parse v0.2.2
[INFO] [stderr]    Compiling libc v0.2.189
[INFO] [stderr]    Compiling anstyle v1.0.14
[INFO] [stderr]    Compiling colorchoice v1.0.5
[INFO] [stderr]    Compiling syn v3.0.3
[INFO] [stderr]    Compiling anstyle-query v1.1.5
[INFO] [stderr]    Compiling is_terminal_polyfill v1.70.2
[INFO] [stderr]    Compiling anstyle-parse v1.0.0
[INFO] [stderr]    Compiling clap_lex v1.1.0
[INFO] [stderr]    Compiling strsim v0.11.1
[INFO] [stderr]    Compiling cc v1.4.0
[INFO] [stderr]    Compiling thiserror v2.0.19
[INFO] [stderr]    Compiling anstream v1.0.0
[INFO] [stderr]    Compiling once_cell v1.21.4
[INFO] [stderr]    Compiling zlib-rs v0.6.6
[INFO] [stderr]    Compiling crossbeam-channel v0.5.16
[INFO] [stderr]    Compiling libdeflate-sys v1.25.2
[INFO] [stderr]    Compiling getrandom v0.4.3
[INFO] [stderr]    Compiling terminal_size v0.4.4
[INFO] [stderr]    Compiling tempfile v3.27.0
[INFO] [stderr]    Compiling clap_builder v4.6.2
[INFO] [stderr]    Compiling clap_derive v4.6.4
[INFO] [stderr]    Compiling thiserror-impl v2.0.19
[INFO] [stderr]    Compiling serde_derive v1.0.229
[INFO] [stderr]    Compiling flate2 v1.1.9
[INFO] [stderr]    Compiling serde v1.0.229
[INFO] [stderr]    Compiling clap v4.6.4
[INFO] [stderr]    Compiling rsomics-help v0.4.0
[INFO] [stderr]    Compiling libdeflater v1.25.2
[INFO] [stderr]    Compiling rsomics-common v0.11.1
[INFO] [stderr]    Compiling rsomics-seqio v0.4.0
[INFO] [stderr]    Compiling rsomics-fastq-preprocess v0.1.1 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 38.68s
[INFO] running `Command { std: "docker" "inspect" "e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384", 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" "e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:68:12
[INFO] [stderr]    |
[INFO] [stderr] 68 | homepage = "https://github.com/omics-rust/rsomics-fastq-preprocess"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 73 | repository = "https://github.com/omics-rust/rsomics-fastq-preprocess"
[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: `rsomics-fastq-preprocess` (manifest) generated 1 warning
[INFO] [stderr]    Compiling serde_core v1.0.229
[INFO] [stderr]    Compiling serde v1.0.229
[INFO] [stderr]    Compiling zerocopy v0.8.55
[INFO] [stderr]    Compiling either v1.17.0
[INFO] [stderr]    Compiling zerocopy-derive v0.8.55
[INFO] [stderr]    Compiling num-traits v0.2.19
[INFO] [stderr]    Compiling ciborium-io v0.2.2
[INFO] [stderr]    Compiling regex-automata v0.4.16
[INFO] [stderr]    Compiling cast v0.3.0
[INFO] [stderr]    Compiling rayon v1.12.0
[INFO] [stderr]    Compiling itertools v0.13.0
[INFO] [stderr]    Compiling oorandom v11.1.5
[INFO] [stderr]    Compiling anes v0.1.6
[INFO] [stderr]    Compiling regex v1.13.1
[INFO] [stderr]    Compiling criterion-plot v0.6.0
[INFO] [stderr]    Compiling serde_json v1.0.151
[INFO] [stderr]    Compiling rsomics-common v0.11.1
[INFO] [stderr]    Compiling tinytemplate v1.2.1
[INFO] [stderr]    Compiling rsomics-seqio v0.4.0
[INFO] [stderr]    Compiling rsomics-fastq-preprocess v0.1.1 (/opt/rustwide/workdir)
[INFO] [stderr]    Compiling half v2.7.1
[INFO] [stderr]    Compiling ciborium-ll v0.2.2
[INFO] [stderr]    Compiling ciborium v0.2.2
[INFO] [stderr]    Compiling criterion v0.7.0
[INFO] [stdout] warning: unused import: `Parser`
[INFO] [stdout]    --> src/cli.rs:356:32
[INFO] [stdout]     |
[INFO] [stdout] 356 |     use clap::{CommandFactory, Parser as _};
[INFO] [stdout]     |                                ^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `test` profile [unoptimized + debuginfo] target(s) in 35.49s
[INFO] running `Command { std: "docker" "inspect" "e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384", 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" "e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "test" "--frozen", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:68:12
[INFO] [stderr]    |
[INFO] [stderr] 68 | homepage = "https://github.com/omics-rust/rsomics-fastq-preprocess"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 73 | repository = "https://github.com/omics-rust/rsomics-fastq-preprocess"
[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: `rsomics-fastq-preprocess` (manifest) generated 1 warning
[INFO] [stderr] warning: unused import: `Parser`
[INFO] [stderr]    --> src/cli.rs:356:32
[INFO] [stderr]     |
[INFO] [stderr] 356 |     use clap::{CommandFactory, Parser as _};
[INFO] [stderr]     |                                ^^^^^^
[INFO] [stderr]     |
[INFO] [stderr]     = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
[INFO] [stderr] 
[INFO] [stderr] warning: `rsomics-fastq-preprocess` (bin "rsomics-fastq-preprocess" test) generated 1 warning
[INFO] [stderr]     Finished `test` profile [unoptimized + debuginfo] target(s) in 0.24s
[INFO] [stderr]      Running unittests src/lib.rs (/opt/rustwide/target/debug/build/rsomics-fastq-preprocess/8647e60c445f9dbb/out/rsomics_fastq_preprocess-8647e60c445f9dbb)
[INFO] [stdout] 
[INFO] [stdout] running 22 tests
[INFO] [stdout] test parallel_gzip::tests::invalid_level_is_rejected ... ok
[INFO] [stdout] test pipeline::tests::constructors_bind_reported_operation_to_stages ... ok
[INFO] [stdout] test pipeline::tests::invalid_public_config_fails_before_output_creation ... ok
[INFO] [stdout] test transform::filter::tests::average_quality_precedes_n_count ... ok
[INFO] [stdout] test transform::filter::tests::complexity_rejects_short_reads_and_uses_case_sensitive_changes ... ok
[INFO] [stdout] test transform::filter::tests::exact_fastp_n_filter_counts_only_uppercase_n ... ok
[INFO] [stdout] test input::tests::mate_ids_allow_standard_suffixes_and_comments ... ok
[INFO] [stdout] test transform::filter::tests::phred64_accepts_inclusive_ascii_boundaries ... ok
[INFO] [stdout] test transform::filter::tests::explicit_phred64_rejects_phred33_bytes ... ok
[INFO] [stdout] test transform::filter::tests::public_check_rejects_invalid_fastq_shape_and_quality ... ok
[INFO] [stdout] test transform::filter::tests::fastp_quality_boundaries_are_strict ... ok
[INFO] [stdout] test transform::filter::tests::public_check_rejects_invalid_configuration ... ok
[INFO] [stdout] test transform::trim::tests::fixed_trim_keeps_quality_in_lockstep ... ok
[INFO] [stdout] test transform::trim::tests::poly_g_exact_cut_includes_allowed_internal_mismatch ... ok
[INFO] [stdout] test parallel_gzip::tests::downstream_write_failure_is_reported ... ok
[INFO] [stdout] test transform::trim::tests::lowercase_poly_g_is_not_fastp_poly_g ... ok
[INFO] [stdout] test transform::trim::tests::malformed_owned_record_is_rejected ... ok
[INFO] [stdout] test transform::trim::tests::zero_poly_x_minimum_is_rejected ... ok
[INFO] [stdout] test parallel_gzip::tests::empty_output_is_a_valid_gzip_stream ... ok
[INFO] [stdout] test parallel_gzip::tests::arbitrary_write_boundaries_round_trip ... ok
[INFO] [stdout] test parallel_gzip::tests::writes_after_flush_form_one_decoded_stream ... ok
[INFO] [stdout] test parallel_gzip::tests::multiple_parallel_batches_preserve_order ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 22 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.30s
[INFO] [stdout] 
[INFO] [stderr]      Running unittests src/main.rs (/opt/rustwide/target/debug/build/rsomics-fastq-preprocess/3fff7eb512443b39/out/rsomics_fastq_preprocess-3fff7eb512443b39)
[INFO] [stdout] 
[INFO] [stdout] running 4 tests
[INFO] [stdout] test cli::tests::command_tree_is_valid ... ok
[INFO] [stdout] test cli::tests::trim_length_filter_is_opt_in ... ok
[INFO] [stdout] test cli::tests::paired_fixed_trim_inherits_only_when_r2_is_absent ... ok
[INFO] [stdout] test cli::tests::thread_limit_uses_a_local_pool ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 4 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.02s
[INFO] [stdout] 
[INFO] [stderr]      Running tests/cli.rs (/opt/rustwide/target/debug/build/rsomics-fastq-preprocess/5915383c9f3fd409/out/cli-5915383c9f3fd409)
[INFO] [stdout] 
[INFO] [stdout] running 22 tests
[INFO] [stdout] test complexity_short_read_boundary_matches_frozen_fastp_output ... ok
[INFO] [stdout] test fastq_stdout_write_failure_is_nonzero ... ok
[INFO] [stdout] test existing_or_aliased_output_is_never_truncated ... ok
[INFO] [stdout] test filter_matches_frozen_fastp_default_output ... ok
[INFO] [stdout] test fully_filtered_gzip_output_is_valid_and_empty ... ok
[INFO] [stdout] test gzip_output_round_trips_through_seqio_content_detection ... ok
[INFO] [stdout] test gzip_stdin_is_decoded_and_truncation_leaves_no_output ... ok
[INFO] [stdout] test paired_filter_is_synchronized_and_json_is_populated ... ok
[INFO] [stdout] test json_and_fastq_cannot_share_stdout ... ok
[INFO] [stdout] test hardlink_and_symlink_output_aliases_preserve_input ... ok
[INFO] [stdout] test malformed_input_leaves_no_final_output ... ok
[INFO] [stdout] test paired_json_counts_each_mates_distinct_failure ... ok
[INFO] [stdout] test single_end_stdin_and_stdout_form_an_identity_pipeline ... ok
[INFO] [stdout] test paired_identifier_or_count_mismatch_rolls_back_both_outputs ... ok
[INFO] [stdout] test phred64_output_is_normalized_to_phred33 ... ok
[INFO] [stdout] test trim_and_single_pass_run_match_frozen_fastp_output ... ok
[INFO] [stdout] test trim_and_filter_stream_composition_matches_run ... ok
[INFO] [stdout] test help_is_available_for_the_product_and_each_operation ... ok
[INFO] [stdout] test paired_input_aliases_are_rejected_before_output_creation ... ok
[INFO] [stdout] test thread_counts_preserve_single_and_paired_results ... ok
[INFO] [stdout] test trim_is_pure_by_default_and_length_filtering_is_explicit ... ok
[INFO] [stdout] test mate_roles_are_enforced_and_casava_comments_are_preserved ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 22 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.11s
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]      Running tests/fastp_compat.rs (/opt/rustwide/target/debug/build/rsomics-fastq-preprocess/d2f325a0bfafc5e9/out/fastp_compat-d2f325a0bfafc5e9)
[INFO] [stdout] running 4 tests
[INFO] [stdout] test paired_fixed_trim_inheritance_and_explicit_zero_match_live_fastp ... ok
[INFO] [stderr]    Doc-tests rsomics_fastq_preprocess
[INFO] [stdout] test maximum_length_and_paired_mixed_failure_match_live_fastp ... ok
[INFO] [stdout] test phred64_boundaries_and_uppercase_n_match_live_fastp ... ok
[INFO] [stdout] test selected_trim_and_filter_semantics_match_live_fastp ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 4 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[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" "e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384", kill_on_drop: false }`
[INFO] [stdout] e704e267cc25878ae72d212b0f6990d0f0e690032a0c9a8762615a1681723384
