[INFO] fetching crate fxtools 0.2.39... [INFO] testing fxtools-0.2.39 against try#8de4c7234dd9b97c9d76b58671343fdbbc9a433e+target=x86_64-unknown-linux-musl for musl_upgrade_1_2_5_with_libc_patch_0 [INFO] extracting crate fxtools 0.2.39 into /workspace/builds/worker-3-tc1/source [INFO] started tweaking crates.io crate fxtools 0.2.39 [INFO] finished tweaking crates.io crate fxtools 0.2.39 [INFO] tweaked toml for crates.io crate fxtools 0.2.39 written to /workspace/builds/worker-3-tc1/source/Cargo.toml [INFO] validating manifest of crates.io crate fxtools 0.2.39 on toolchain 8de4c7234dd9b97c9d76b58671343fdbbc9a433e [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate crates.io crate fxtools 0.2.39 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" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Updating crates.io index [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded ndarray-stats v0.6.0 [INFO] [stderr] Downloaded core_affinity v0.8.0 [INFO] [stderr] Downloaded niffler v2.6.0 [INFO] [stderr] Downloaded bgzip v0.3.1 [INFO] [stderr] Downloaded liblzma v0.3.4 [INFO] [stderr] Downloaded portable-atomic-util v0.2.2 [INFO] [stderr] Downloaded spinoff v0.8.0 [INFO] [stderr] Downloaded disambiseq v0.1.11 [INFO] [stderr] Downloaded liblzma-sys v0.3.9 [INFO] [stderr] Downloaded fxread v0.2.13 [INFO] [stderr] Downloaded gzp v0.11.3 [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@sha256:90999bfc7ae267e83380e433d8e61a7c072ca6729e92edbae886d3423b3a6f4c" "/opt/rustwide/cargo-home/bin/cargo" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] a87eb55f3e0bd971bae9aabe443b5893cea1fc4ace79c65e39b7fd5082d6b45b [INFO] running `Command { std: "docker" "start" "-a" "a87eb55f3e0bd971bae9aabe443b5893cea1fc4ace79c65e39b7fd5082d6b45b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "a87eb55f3e0bd971bae9aabe443b5893cea1fc4ace79c65e39b7fd5082d6b45b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "a87eb55f3e0bd971bae9aabe443b5893cea1fc4ace79c65e39b7fd5082d6b45b", kill_on_drop: false }` [INFO] [stdout] a87eb55f3e0bd971bae9aabe443b5893cea1fc4ace79c65e39b7fd5082d6b45b [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@sha256:90999bfc7ae267e83380e433d8e61a7c072ca6729e92edbae886d3423b3a6f4c" "/opt/rustwide/cargo-home/bin/cargo" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "build" "--frozen" "--message-format=json" "--target" "x86_64-unknown-linux-musl", kill_on_drop: false }` [INFO] [stdout] c430b7c989fafbfdcea7aafcc924fc8e5e6866f99d5503aaee73098e8c8b226b [INFO] running `Command { std: "docker" "start" "-a" "c430b7c989fafbfdcea7aafcc924fc8e5e6866f99d5503aaee73098e8c8b226b", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.147 [INFO] [stderr] Compiling proc-macro2 v1.0.86 [INFO] [stderr] Compiling autocfg v1.1.0 [INFO] [stderr] Compiling unicode-ident v1.0.11 [INFO] [stderr] Compiling pkg-config v0.3.31 [INFO] [stderr] Compiling crc32fast v1.3.2 [INFO] [stderr] Compiling adler2 v2.0.0 [INFO] [stderr] Compiling thiserror v1.0.44 [INFO] [stderr] Compiling version_check v0.9.4 [INFO] [stderr] Compiling zstd-safe v7.2.1 [INFO] [stderr] Compiling allocator-api2 v0.2.18 [INFO] [stderr] Compiling rustix v0.38.4 [INFO] [stderr] Compiling futures-core v0.3.28 [INFO] [stderr] Compiling utf8parse v0.2.1 [INFO] [stderr] Compiling bitflags v2.3.3 [INFO] [stderr] Compiling once_cell v1.18.0 [INFO] [stderr] Compiling serde v1.0.210 [INFO] [stderr] Compiling miniz_oxide v0.8.0 [INFO] [stderr] Compiling linux-raw-sys v0.4.3 [INFO] [stderr] Compiling anstyle-parse v0.2.3 [INFO] [stderr] Compiling aho-corasick v1.1.1 [INFO] [stderr] Compiling anstyle-query v1.0.2 [INFO] [stderr] Compiling anyhow v1.0.89 [INFO] [stderr] Compiling rawpointer v0.2.1 [INFO] [stderr] Compiling anstyle v1.0.8 [INFO] [stderr] Compiling ppv-lite86 v0.2.17 [INFO] [stderr] Compiling colorchoice v1.0.0 [INFO] [stderr] Compiling ahash v0.8.11 [INFO] [stderr] Compiling foldhash v0.1.3 [INFO] [stderr] Compiling equivalent v1.0.1 [INFO] [stderr] Compiling paste v1.0.14 [INFO] [stderr] Compiling zerocopy v0.7.35 [INFO] [stderr] Compiling hashbrown v0.15.0 [INFO] [stderr] Compiling num-traits v0.2.16 [INFO] [stderr] Compiling lock_api v0.4.10 [INFO] [stderr] Compiling num-integer v0.1.45 [INFO] [stderr] Compiling matrixmultiply v0.3.7 [INFO] [stderr] Compiling anstream v0.6.13 [INFO] [stderr] Compiling flate2 v1.0.34 [INFO] [stderr] Compiling clap_lex v0.7.0 [INFO] [stderr] Compiling either v1.9.0 [INFO] [stderr] Compiling quote v1.0.36 [INFO] [stderr] Compiling jobserver v0.1.32 [INFO] [stderr] Compiling regex-automata v0.4.8 [INFO] [stderr] Compiling itoa v1.0.9 [INFO] [stderr] Compiling getrandom v0.2.10 [INFO] [stderr] Compiling syn v2.0.72 [INFO] [stderr] Compiling num_cpus v1.16.0 [INFO] [stderr] Compiling rand_core v0.6.4 [INFO] [stderr] Compiling nanorand v0.7.0 [INFO] [stderr] Compiling spin v0.9.8 [INFO] [stderr] Compiling cc v1.0.79 [INFO] [stderr] Compiling ryu v1.0.15 [INFO] [stderr] Compiling rand_chacha v0.3.1 [INFO] [stderr] Compiling lazy_static v1.4.0 [INFO] [stderr] Compiling futures-sink v0.3.28 [INFO] [stderr] Compiling serde_json v1.0.128 [INFO] [stderr] Compiling clap_builder v4.5.20 [INFO] [stderr] Compiling core_affinity v0.8.0 [INFO] [stderr] Compiling is-terminal v0.4.9 [INFO] [stderr] Compiling indexmap v2.6.0 [INFO] [stderr] Compiling colored v2.0.4 [INFO] [stderr] Compiling itertools v0.13.0 [INFO] [stderr] Compiling hashbrown v0.14.5 [INFO] [stderr] Compiling rand v0.8.5 [INFO] [stderr] Compiling csv-core v0.1.11 [INFO] [stderr] Compiling num-complex v0.4.3 [INFO] [stderr] Compiling noisy_float v0.2.0 [INFO] [stderr] Compiling byteorder v1.4.3 [INFO] [stderr] Compiling bytes v1.4.0 [INFO] [stderr] Compiling ndarray v0.16.1 [INFO] [stderr] Compiling spinoff v0.8.0 [INFO] [stderr] Compiling disambiseq v0.1.11 [INFO] [stderr] Compiling zstd-sys v2.0.13+zstd.1.5.6 [INFO] [stderr] Compiling liblzma-sys v0.3.9 [INFO] [stderr] Compiling bzip2-sys v0.1.11+1.0.8 [INFO] [stderr] Compiling bstr v1.10.0 [INFO] [stderr] Compiling regex v1.11.0 [INFO] [stderr] Compiling bzip2 v0.4.4 [INFO] [stderr] Compiling ndarray-stats v0.6.0 [INFO] [stderr] Compiling liblzma v0.3.4 [INFO] [stderr] Compiling thiserror-impl v1.0.44 [INFO] [stderr] Compiling pin-project-internal v1.1.2 [INFO] [stderr] Compiling serde_derive v1.0.210 [INFO] [stderr] Compiling clap_derive v4.5.18 [INFO] [stderr] Compiling pin-project v1.1.2 [INFO] [stderr] Compiling flume v0.10.14 [INFO] [stderr] Compiling zstd v0.13.2 [INFO] [stderr] Compiling bgzip v0.3.1 [INFO] [stderr] Compiling gzp v0.11.3 [INFO] [stderr] Compiling niffler v2.6.0 [INFO] [stderr] Compiling fxread v0.2.13 [INFO] [stderr] Compiling clap v4.5.20 [INFO] [stderr] Compiling csv v1.3.0 [INFO] [stderr] Compiling fxtools v0.2.39 (/opt/rustwide/workdir) [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 34.46s [INFO] running `Command { std: "docker" "inspect" "c430b7c989fafbfdcea7aafcc924fc8e5e6866f99d5503aaee73098e8c8b226b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "c430b7c989fafbfdcea7aafcc924fc8e5e6866f99d5503aaee73098e8c8b226b", kill_on_drop: false }` [INFO] [stdout] c430b7c989fafbfdcea7aafcc924fc8e5e6866f99d5503aaee73098e8c8b226b [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@sha256:90999bfc7ae267e83380e433d8e61a7c072ca6729e92edbae886d3423b3a6f4c" "/opt/rustwide/cargo-home/bin/cargo" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "test" "--frozen" "--no-run" "--message-format=json" "--target" "x86_64-unknown-linux-musl", kill_on_drop: false }` [INFO] [stdout] 0914e3855c6ca271b792c5a7e8d7cf2f6b16cfbd9c0ae0c77daf3936fb95bcef [INFO] running `Command { std: "docker" "start" "-a" "0914e3855c6ca271b792c5a7e8d7cf2f6b16cfbd9c0ae0c77daf3936fb95bcef", kill_on_drop: false }` [INFO] [stderr] Compiling fxtools v0.2.39 (/opt/rustwide/workdir) [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 3.39s [INFO] running `Command { std: "docker" "inspect" "0914e3855c6ca271b792c5a7e8d7cf2f6b16cfbd9c0ae0c77daf3936fb95bcef", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "0914e3855c6ca271b792c5a7e8d7cf2f6b16cfbd9c0ae0c77daf3936fb95bcef", kill_on_drop: false }` [INFO] [stdout] 0914e3855c6ca271b792c5a7e8d7cf2f6b16cfbd9c0ae0c77daf3936fb95bcef [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@sha256:90999bfc7ae267e83380e433d8e61a7c072ca6729e92edbae886d3423b3a6f4c" "/opt/rustwide/cargo-home/bin/cargo" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "test" "--frozen" "--target" "x86_64-unknown-linux-musl", kill_on_drop: false }` [INFO] [stdout] 72d9c483c30f8b19678b22a9da7af88e5a3d6bb41b264335392f0274e4e33b9d [INFO] running `Command { std: "docker" "start" "-a" "72d9c483c30f8b19678b22a9da7af88e5a3d6bb41b264335392f0274e4e33b9d", kill_on_drop: false }` [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.13s [INFO] [stderr] Running unittests src/main.rs (/opt/rustwide/target/x86_64-unknown-linux-musl/debug/deps/fxtools-af173027536c92d3) [INFO] [stdout] [INFO] [stdout] running 63 tests [INFO] [stdout] test commands::clip::test::fasta_clip_left ... ok [INFO] [stdout] test commands::clip::test::fasta_clip_range_both ... ok [INFO] [stdout] test commands::clip::test::fasta_clip_range_left ... ok [INFO] [stdout] test commands::clip::test::fasta_clip_range_right ... ok [INFO] [stdout] test commands::clip::test::fasta_clip_right ... ok [INFO] [stdout] test commands::clip::test::fasta_no_clip ... ok [INFO] [stdout] test commands::clip::test::fastq_clip_left ... ok [INFO] [stdout] test commands::clip::test::fastq_clip_range_both ... ok [INFO] [stdout] test commands::clip::test::fastq_clip_range_left ... ok [INFO] [stdout] test commands::clip::test::fastq_clip_range_right ... ok [INFO] [stdout] test commands::clip::test::fastq_clip_right ... ok [INFO] [stdout] test commands::clip::test::fastq_no_clip ... ok [INFO] [stdout] test commands::clip::test::test_parse_range ... ok [INFO] [stdout] test commands::count::test::test_count_fasta ... ok [INFO] [stdout] test commands::extract::testing::test_base_map ... ok [INFO] [stdout] test commands::count::test::test_count_fastq ... ok [INFO] [stdout] test commands::extract::testing::test_border ... ok [INFO] [stdout] test commands::extract::testing::test_contiguous ... ok [INFO] [stdout] test commands::extract::testing::test_high_entropy_positions ... ok [INFO] [stdout] test commands::extract::testing::test_longest_contiguous ... ok [INFO] [stdout] test commands::extract::testing::test_position_counts ... ok [INFO] [stdout] test commands::extract::testing::test_positional_entropy_high ... ok [INFO] [stdout] test commands::extract::testing::test_positional_entropy_none ... ok [INFO] [stdout] test commands::filter::test::test_fasta_sequence ... ok [INFO] [stdout] test commands::filter::test::test_fasta_header_inverse ... ok [INFO] [stdout] test commands::filter::test::test_fasta_sequence_inverse ... ok [INFO] [stdout] test commands::filter::test::test_fasta_header ... ok [INFO] [stdout] test commands::filter::test::test_fastq_header ... ok [INFO] [stdout] test commands::filter::test::test_fastq_header_inverse ... ok [INFO] [stdout] test commands::extract::testing::test_position_frequency ... ok [INFO] [stdout] test commands::fix::test::run_fasta_nochange ... ok [INFO] [stdout] test commands::fix::test::run_fasta ... ok [INFO] [stdout] test commands::filter::test::test_fastq_sequence ... ok [INFO] [stdout] test commands::fix::test::run_invalid_fasta_allow_invalid ... ok [INFO] [stdout] test commands::fix::test::run_fastq_nochange ... ok [INFO] [stdout] test commands::fix::test::run_fastq ... ok [INFO] [stdout] test commands::reverse::test::run_fastq ... ok [INFO] [stdout] test commands::fix::test::run_invalid_fastq_allow_invalid ... ok [INFO] [stdout] test commands::filter::test::test_fastq_sequence_inverse ... ok [INFO] [stdout] test commands::sort::testing::sort_paired_fasta_by_r1 ... ok [INFO] [stdout] test commands::sort::testing::sort_paired_fastq_by_r1 ... ok [INFO] [stdout] test commands::sort::testing::sort_single_fasta ... ok [INFO] [stdout] test commands::t2g::testing::run_fasta_nodot_gene_id ... ok [INFO] [stdout] test commands::sgrna_table::test::table_fasta ... ok [INFO] [stdout] test commands::t2g::testing::run_fasta_nodot_missing_gene_name ... ok [INFO] [stdout] test commands::sort::testing::sort_paired_fastq_by_r2 ... ok [INFO] [stdout] test commands::t2g::testing::run_fasta_dot_gene_id ... ok [INFO] [stdout] test commands::sort::testing::sort_paired_fasta_by_r2 ... ok [INFO] [stdout] test commands::sort::testing::sort_single_fastq ... ok [INFO] [stdout] test commands::t2g::testing::run_fasta_dot_missing_gene_name ... ok [INFO] [stdout] test commands::sgrna_table::test::table_fastq ... ok [INFO] [stdout] test commands::unique::test::unique_fasta ... ok [INFO] [stdout] test commands::upper::test::run_fasta ... ok [INFO] [stdout] test commands::unique::test::unique_fastq ... ok [INFO] [stdout] test commands::upper::test::run_invalid_fasta_allow_invalid ... ok [INFO] [stdout] test commands::upper::test::run_fastq ... ok [INFO] [stdout] test commands::reverse::test::run_fasta ... ok [INFO] [stdout] test commands::t2g::testing::run_fasta_nodot_gene_symbol ... ok [INFO] [stdout] test commands::upper::test::run_invalid_fastq_allow_invalid ... ok [INFO] [stdout] test commands::reverse::test::run_invalid_fastq - should panic ... ok [INFO] [stdout] test commands::reverse::test::run_invalid_fasta - should panic ... ok [INFO] [stdout] test commands::upper::test::run_invalid_fasta - should panic ... ok [INFO] [stdout] test commands::upper::test::run_invalid_fastq - should panic ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 63 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.17s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "72d9c483c30f8b19678b22a9da7af88e5a3d6bb41b264335392f0274e4e33b9d", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "72d9c483c30f8b19678b22a9da7af88e5a3d6bb41b264335392f0274e4e33b9d", kill_on_drop: false }` [INFO] [stdout] 72d9c483c30f8b19678b22a9da7af88e5a3d6bb41b264335392f0274e4e33b9d