[INFO] fetching crate yacrd 0.6.2... [INFO] testing yacrd-0.6.2 against master#a77da2d454e6caa227a85b16410b95f93495e7e0 for pr-91031 [INFO] extracting crate yacrd 0.6.2 into /workspace/builds/worker-6/source [INFO] validating manifest of crates.io crate yacrd 0.6.2 on toolchain a77da2d454e6caa227a85b16410b95f93495e7e0 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+a77da2d454e6caa227a85b16410b95f93495e7e0" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking crates.io crate yacrd 0.6.2 [INFO] finished tweaking crates.io crate yacrd 0.6.2 [INFO] tweaked toml for crates.io crate yacrd 0.6.2 written to /workspace/builds/worker-6/source/Cargo.toml [INFO] crate crates.io crate yacrd 0.6.2 already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+a77da2d454e6caa227a85b16410b95f93495e7e0" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-6/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-6/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@sha256:5736fa189c1c60b01babf4b8b698fe57b6ecc41933a7ff2e0b8d7a221459412b" "/opt/rustwide/cargo-home/bin/cargo" "+a77da2d454e6caa227a85b16410b95f93495e7e0" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 8c88ebe924f0184229bf55a3ed9dd3b88bf2656d497e74e16d0de4cd5943b102 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `Command { std: "docker" "start" "-a" "8c88ebe924f0184229bf55a3ed9dd3b88bf2656d497e74e16d0de4cd5943b102", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "8c88ebe924f0184229bf55a3ed9dd3b88bf2656d497e74e16d0de4cd5943b102", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "8c88ebe924f0184229bf55a3ed9dd3b88bf2656d497e74e16d0de4cd5943b102", kill_on_drop: false }` [INFO] [stdout] 8c88ebe924f0184229bf55a3ed9dd3b88bf2656d497e74e16d0de4cd5943b102 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-6/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-6/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" "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@sha256:5736fa189c1c60b01babf4b8b698fe57b6ecc41933a7ff2e0b8d7a221459412b" "/opt/rustwide/cargo-home/bin/cargo" "+a77da2d454e6caa227a85b16410b95f93495e7e0" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] ef3525d005138dd25a9696f2b3e9a27ba62d8f8d46d1bbe326480305ca94fa44 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `Command { std: "docker" "start" "-a" "ef3525d005138dd25a9696f2b3e9a27ba62d8f8d46d1bbe326480305ca94fa44", kill_on_drop: false }` [INFO] [stderr] Compiling syn v1.0.34 [INFO] [stderr] Compiling pkg-config v0.3.18 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling feature-probe v0.1.1 [INFO] [stderr] Compiling ryu v1.0.5 [INFO] [stderr] Compiling crc32fast v1.2.0 [INFO] [stderr] Compiling ndarray v0.13.1 [INFO] [stderr] Compiling adler v0.2.3 [INFO] [stderr] Compiling fixedbitset v0.1.9 [INFO] [stderr] Compiling bio v0.31.0 [INFO] [stderr] Compiling bit-vec v0.6.2 [INFO] [stderr] Compiling bytecount v0.6.0 [INFO] [stderr] Compiling os_str_bytes v2.3.1 [INFO] [stderr] Compiling fnv v1.0.7 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling num-traits v0.2.12 [INFO] [stderr] Compiling proc-macro-error-attr v0.4.12 [INFO] [stderr] Compiling proc-macro-error v0.4.12 [INFO] [stderr] Compiling num-integer v0.1.43 [INFO] [stderr] Compiling num-complex v0.2.4 [INFO] [stderr] Compiling hashbrown v0.8.1 [INFO] [stderr] Compiling indexmap v1.5.0 [INFO] [stderr] Compiling matrixmultiply v0.2.3 [INFO] [stderr] Compiling proc-macro2 v1.0.18 [INFO] [stderr] Compiling miniz_oxide v0.4.0 [INFO] [stderr] Compiling petgraph v0.4.13 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Compiling bit-set v0.5.2 [INFO] [stderr] Compiling bv v0.11.1 [INFO] [stderr] Compiling getrandom v0.1.14 [INFO] [stderr] Compiling regex-automata v0.1.9 [INFO] [stderr] Compiling fxhash v0.2.1 [INFO] [stderr] Compiling regex v1.3.9 [INFO] [stderr] Compiling rand_core v0.5.1 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling rand_chacha v0.2.2 [INFO] [stderr] Compiling lzma-sys v0.1.16 [INFO] [stderr] Compiling bzip2-sys v0.1.9+1.0.8 [INFO] [stderr] Compiling quote v1.0.7 [INFO] [stderr] Compiling flate2 v1.0.16 [INFO] [stderr] Compiling rand v0.7.3 [INFO] [stderr] Compiling xz2 v0.1.6 [INFO] [stderr] Compiling num-traits v0.1.43 [INFO] [stderr] Compiling ordered-float v1.1.0 [INFO] [stderr] Compiling itertools-num v0.1.3 [INFO] [stderr] Compiling approx v0.3.2 [INFO] [stderr] Compiling enum_primitive v0.1.1 [INFO] [stderr] Compiling env_logger v0.7.1 [INFO] [stderr] Compiling statrs v0.12.0 [INFO] [stderr] Compiling bzip2 v0.3.3 [INFO] [stderr] Compiling syn-mid v0.5.0 [INFO] [stderr] Compiling serde_derive v1.0.114 [INFO] [stderr] Compiling derive-new v0.5.8 [INFO] [stderr] Compiling thiserror-impl v1.0.20 [INFO] [stderr] Compiling snafu-derive v0.6.8 [INFO] [stderr] Compiling strum_macros v0.18.0 [INFO] [stderr] Compiling getset v0.0.9 [INFO] [stderr] Compiling clap_derive v3.0.0-beta.1 [INFO] [stderr] Compiling thiserror v1.0.20 [INFO] [stderr] Compiling niffler v2.2.0 [INFO] [stderr] Compiling snafu v0.6.8 [INFO] [stderr] Compiling serde v1.0.114 [INFO] [stderr] Compiling bstr v0.2.13 [INFO] [stderr] Compiling vec_map v0.8.2 [INFO] [stderr] Compiling bio-types v0.7.0 [INFO] [stderr] Compiling multimap v0.6.0 [INFO] [stderr] Compiling clap v3.0.0-beta.1 [INFO] [stderr] Compiling csv v1.1.3 [INFO] [stderr] Compiling yacrd v0.6.2 (/opt/rustwide/workdir) [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 1m 43s [INFO] running `Command { std: "docker" "inspect" "ef3525d005138dd25a9696f2b3e9a27ba62d8f8d46d1bbe326480305ca94fa44", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "ef3525d005138dd25a9696f2b3e9a27ba62d8f8d46d1bbe326480305ca94fa44", kill_on_drop: false }` [INFO] [stdout] ef3525d005138dd25a9696f2b3e9a27ba62d8f8d46d1bbe326480305ca94fa44 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-6/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-6/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" "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@sha256:5736fa189c1c60b01babf4b8b698fe57b6ecc41933a7ff2e0b8d7a221459412b" "/opt/rustwide/cargo-home/bin/cargo" "+a77da2d454e6caa227a85b16410b95f93495e7e0" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 10781f19778877a3fefc5c95cfac2ad97e32f78c9b45402e2d607d7c4b4c97f8 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `Command { std: "docker" "start" "-a" "10781f19778877a3fefc5c95cfac2ad97e32f78c9b45402e2d607d7c4b4c97f8", kill_on_drop: false }` [INFO] [stderr] Compiling remove_dir_all v0.5.3 [INFO] [stderr] Compiling tempfile v3.1.0 [INFO] [stderr] Compiling yacrd v0.6.2 (/opt/rustwide/workdir) [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 7.23s [INFO] running `Command { std: "docker" "inspect" "10781f19778877a3fefc5c95cfac2ad97e32f78c9b45402e2d607d7c4b4c97f8", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "10781f19778877a3fefc5c95cfac2ad97e32f78c9b45402e2d607d7c4b4c97f8", kill_on_drop: false }` [INFO] [stdout] 10781f19778877a3fefc5c95cfac2ad97e32f78c9b45402e2d607d7c4b4c97f8 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-6/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-6/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" "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@sha256:5736fa189c1c60b01babf4b8b698fe57b6ecc41933a7ff2e0b8d7a221459412b" "/opt/rustwide/cargo-home/bin/cargo" "+a77da2d454e6caa227a85b16410b95f93495e7e0" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] 66e4948fb0dc7b791d47959222e9d0d7215aab7d2204248278d720e6640be076 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `Command { std: "docker" "start" "-a" "66e4948fb0dc7b791d47959222e9d0d7215aab7d2204248278d720e6640be076", kill_on_drop: false }` [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 0.19s [INFO] [stderr] Running unittests (/opt/rustwide/target/debug/deps/yacrd-07903b4fe98a5086) [INFO] [stdout] [INFO] [stdout] running 52 tests [INFO] [stdout] test editor::extract::tests::fasta_file ... ok [INFO] [stdout] test editor::extract::tests::fastq_file ... ok [INFO] [stdout] test editor::extract::tests::paf_file ... ok [INFO] [stdout] test editor::extract::tests::m4_file ... ok [INFO] [stdout] test editor::filter::tests::fasta_file ... ok [INFO] [stdout] test editor::filter::tests::fastq_file ... ok [INFO] [stdout] test reads2ovl::tests::m4 ... ok [INFO] [stdout] test editor::filter::tests::m4_file ... ok [INFO] [stdout] test editor::scrubbing::tests::fasta_keep_begin_end ... ok [INFO] [stdout] test editor::scrubbing::tests::fasta_keep_middle ... ok [INFO] [stdout] test editor::scrubbing::tests::fastq_keep_begin_end ... ok [INFO] [stdout] test editor::scrubbing::tests::fastq_keep_middle ... ok [INFO] [stdout] test editor::split::tests::fasta_file ... ok [INFO] [stdout] test editor::split::tests::fastq_file ... ok [INFO] [stdout] test reads2ovl::tests::paf ... ok [INFO] [stdout] test stack::tests::coverage_upper_than_0 ... ok [INFO] [stdout] test editor::tests::read_type_assignation ... ok [INFO] [stdout] test util::tests::file_type::fa ... ok [INFO] [stdout] test util::tests::file_type::fasta ... ok [INFO] [stdout] test util::tests::file_type::m4 ... ok [INFO] [stdout] test util::tests::file_type::m4_with_nopoint ... ok [INFO] [stdout] test util::tests::file_type::m4_with_other_ext ... ok [INFO] [stdout] test util::tests::file_type::mhap ... ok [INFO] [stdout] test util::tests::file_type::mhap_with_nopoint ... ok [INFO] [stdout] test util::tests::file_type::mhap_with_other_ext ... ok [INFO] [stdout] test util::tests::file_type::paf ... ok [INFO] [stdout] test util::tests::file_type::paf_with_nopoint ... ok [INFO] [stdout] test util::tests::file_type::paf_with_other_ext ... ok [INFO] [stdout] test util::tests::file_type::yacrd_overlap ... ok [INFO] [stdout] test stack::tests::failled_correctly_on_corrupt_yacrd ... ok [INFO] [stdout] test util::tests::file_type::fa_with_nopoint ... ok [INFO] [stdout] test stack::tests::from_report ... ok [INFO] [stdout] test util::tests::file_type::fa_with_other_ext ... ok [INFO] [stdout] test stack::tests::from_overlap ... ok [INFO] [stdout] test util::tests::file_type::fq ... ok [INFO] [stdout] test util::tests::file_type::fq_with_nopoint ... ok [INFO] [stdout] test util::tests::file_type::fq_with_other_ext ... ok [INFO] [stdout] test util::tests::str2u64::succeeded ... ok [INFO] [stdout] test util::tests::str2u32::failed ... ok [INFO] [stdout] test util::tests::file_type::fasta_with_other_ext ... ok [INFO] [stdout] test util::tests::file_type::fastq ... ok [INFO] [stdout] test util::tests::file_type::fastq_with_nopoint ... ok [INFO] [stdout] test util::tests::file_type::fasta_with_nopoint ... ok [INFO] [stdout] test util::tests::str2usize::succeeded ... ok [INFO] [stdout] test util::tests::str2usize::failed ... ok [INFO] [stdout] test util::tests::file_type::yacrd_overlap_with_nopoint ... ok [INFO] [stdout] test util::tests::str2u64::failed ... ok [INFO] [stdout] test util::tests::file_type::fastq_with_other_ext ... ok [INFO] [stdout] test editor::filter::tests::paf_file ... ok [INFO] [stdout] test stack::tests::perfect_read_in_report ... ok [INFO] [stdout] test util::tests::str2u32::succeeded ... ok [INFO] [stdout] test util::tests::file_type::yacrd_overlap_with_other_ext ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 52 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.02s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "66e4948fb0dc7b791d47959222e9d0d7215aab7d2204248278d720e6640be076", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "66e4948fb0dc7b791d47959222e9d0d7215aab7d2204248278d720e6640be076", kill_on_drop: false }` [INFO] [stdout] 66e4948fb0dc7b791d47959222e9d0d7215aab7d2204248278d720e6640be076