[INFO] updating cached repository https://github.com/esrice/trio_binning [INFO] running `"git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "-c" "remote.origin.fetch=refs/heads/*:refs/heads/*" "fetch" "origin" "--force" "--prune"` [INFO] running `"git" "rev-parse" "HEAD"` [INFO] [stdout] ac93329e5c1abfcf6ea312e21434a28193c0ee5d [INFO] checking esrice/trio_binning against master#bd0bacc694d7d8175804bb6f690cb846bfa4a9ee for pr-71665 [INFO] running `"git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fesrice%2Ftrio_binning" "/workspace/builds/worker-3/source"` [INFO] [stderr] Cloning into '/workspace/builds/worker-3/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/esrice/trio_binning on toolchain bd0bacc694d7d8175804bb6f690cb846bfa4a9ee [INFO] running `"/workspace/cargo-home/bin/cargo" "+bd0bacc694d7d8175804bb6f690cb846bfa4a9ee" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] started tweaking git repo https://github.com/esrice/trio_binning [INFO] finished tweaking git repo https://github.com/esrice/trio_binning [INFO] tweaked toml for git repo https://github.com/esrice/trio_binning written to /workspace/builds/worker-3/source/Cargo.toml [INFO] crate git repo https://github.com/esrice/trio_binning already has a lockfile, it will not be regenerated [INFO] running `"/workspace/cargo-home/bin/cargo" "+bd0bacc694d7d8175804bb6f690cb846bfa4a9ee" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] [stderr] error: the lock file /workspace/builds/worker-3/source/Cargo.lock needs to be updated but --locked was passed to prevent this [INFO] [stderr] If you want to try to generate the lock file without accessing the network, use the --offline flag. [INFO] the lockfile is outdated, regenerating it [INFO] running `"/workspace/cargo-home/bin/cargo" "+bd0bacc694d7d8175804bb6f690cb846bfa4a9ee" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update"` [INFO] [stderr] Updating git repository `https://github.com/rust-bio/rust-htslib.git` [INFO] [stderr] Updating git repository `https://github.com/alexcrichton/bzip2-rs.git` [INFO] running `"/workspace/cargo-home/bin/cargo" "+bd0bacc694d7d8175804bb6f690cb846bfa4a9ee" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/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" "MAP_USER_ID=0" "-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" "--network" "none" "rustops/crates-build-env" "/opt/rustwide/cargo-home/bin/cargo" "+bd0bacc694d7d8175804bb6f690cb846bfa4a9ee" "check" "--frozen" "--all" "--all-targets"` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] a184b2dcb238f03935570b1e12eed1aa4a3df14b07a5b3ab8211bbdf0c33198f [INFO] running `"docker" "start" "-a" "a184b2dcb238f03935570b1e12eed1aa4a3df14b07a5b3ab8211bbdf0c33198f"` [INFO] [stderr] sudo: setrlimit(RLIMIT_CORE): Operation not permitted [INFO] [stderr] Compiling memchr v2.3.3 [INFO] [stderr] Compiling cc v1.0.52 [INFO] [stderr] Checking lazy_static v1.4.0 [INFO] [stderr] Compiling semver-parser v0.7.0 [INFO] [stderr] Compiling proc-macro2 v1.0.12 [INFO] [stderr] Checking cfg-if v0.1.10 [INFO] [stderr] Compiling bitflags v1.2.1 [INFO] [stderr] Checking scopeguard v0.3.3 [INFO] [stderr] Compiling unicode-xid v0.2.0 [INFO] [stderr] Compiling maybe-uninit v2.0.0 [INFO] [stderr] Compiling pkg-config v0.3.17 [INFO] [stderr] Checking rand_core v0.4.2 [INFO] [stderr] Checking nodrop v0.1.14 [INFO] [stderr] Compiling quick-error v1.2.3 [INFO] [stderr] Compiling log v0.4.8 [INFO] [stderr] Checking memoffset v0.2.1 [INFO] [stderr] Compiling regex-syntax v0.6.17 [INFO] [stderr] Checking stable_deref_trait v1.1.1 [INFO] [stderr] Compiling unicode-width v0.1.7 [INFO] [stderr] Compiling bindgen v0.36.1 [INFO] [stderr] Compiling strsim v0.8.0 [INFO] [stderr] Compiling ansi_term v0.11.0 [INFO] [stderr] Compiling termcolor v1.1.0 [INFO] [stderr] Compiling vec_map v0.8.2 [INFO] [stderr] Compiling peeking_take_while v0.1.2 [INFO] [stderr] Compiling crc32fast v1.2.0 [INFO] [stderr] Checking either v1.5.3 [INFO] [stderr] Checking safemem v0.2.0 [INFO] [stderr] Checking adler32 v1.0.4 [INFO] [stderr] Checking linear-map v1.2.0 [INFO] [stderr] Checking ieee754 v0.2.6 [INFO] [stderr] Checking lazy_static v0.2.11 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking scoped_threadpool v0.1.9 [INFO] [stderr] Checking bitflags v0.9.1 [INFO] [stderr] Compiling thread_local v1.0.1 [INFO] [stderr] Compiling thread_local v0.3.6 [INFO] [stderr] Compiling clang-sys v0.22.0 [INFO] [stderr] Checking crossbeam-utils v0.6.6 [INFO] [stderr] Compiling semver v0.9.0 [INFO] [stderr] Checking rand_core v0.3.1 [INFO] [stderr] Compiling humantime v1.3.0 [INFO] [stderr] Compiling fs-utils v1.1.4 [INFO] [stderr] Compiling proc-macro2 v0.3.5 [INFO] [stderr] Checking owning_ref v0.4.1 [INFO] [stderr] Checking itertools v0.6.5 [INFO] [stderr] Checking miniz_oxide v0.3.6 [INFO] [stderr] Compiling libc v0.2.69 [INFO] [stderr] Checking arrayvec v0.4.12 [INFO] [stderr] Compiling libloading v0.5.2 [INFO] [stderr] Compiling bzip2-sys v0.1.8+1.0.8 (https://github.com/alexcrichton/bzip2-rs.git#461d6691) [INFO] [stderr] Compiling lzma-sys v0.1.15 [INFO] [stderr] Compiling libz-sys v1.0.25 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Checking idna v0.1.5 [INFO] [stderr] Compiling rustc_version v0.2.3 [INFO] [stderr] Checking lock_api v0.1.5 [INFO] [stderr] Checking rand v0.5.6 [INFO] [stderr] Checking term_size v0.3.2 [INFO] [stderr] Checking slice-deque v0.1.16 [INFO] [stderr] Compiling quote v0.5.2 [INFO] [stderr] Checking crossbeam-epoch v0.5.2 [INFO] [stderr] Checking crossbeam-epoch v0.6.1 [INFO] [stderr] Compiling aho-corasick v0.7.10 [INFO] [stderr] Compiling aho-corasick v0.6.10 [INFO] [stderr] Compiling memchr v1.0.2 [INFO] [stderr] Compiling atty v0.2.14 [INFO] [stderr] Compiling which v1.0.5 [INFO] [stderr] Checking smallvec v0.6.13 [INFO] [stderr] Compiling quote v1.0.4 [INFO] [stderr] Checking flate2 v1.0.14 [INFO] [stderr] Checking textwrap v0.11.0 [INFO] [stderr] Checking textwrap v0.10.0 [INFO] [stderr] Compiling parking_lot_core v0.3.1 [INFO] [stderr] Checking url v1.7.2 [INFO] [stderr] Checking crossbeam-deque v0.5.2 [INFO] [stderr] Checking buf_redux v0.7.1 [INFO] [stderr] Compiling nom v3.2.1 [INFO] [stderr] Compiling regex v0.2.11 [INFO] [stderr] Compiling syn v1.0.19 [INFO] [stderr] Checking clap v2.33.1 [INFO] [stderr] Compiling regex v1.3.7 [INFO] [stderr] Compiling cexpr v0.2.3 [INFO] [stderr] Checking parking_lot v0.6.4 [INFO] [stderr] Compiling env_logger v0.5.13 [INFO] [stderr] Checking crossbeam-channel v0.2.6 [INFO] [stderr] Checking crossbeam v0.4.1 [INFO] [stderr] Compiling serde_derive v1.0.110 [INFO] [stderr] Compiling derive-new v0.5.8 [INFO] [stderr] Checking bio-types v0.6.0 [INFO] [stderr] Checking seq_io v0.3.0 [INFO] [stderr] Compiling rust-htslib v0.21.1-alpha.0 (https://github.com/rust-bio/rust-htslib.git?rev=1f9736e#1f9736ef) [INFO] [stderr] Checking trio_binning v0.2.3 (/opt/rustwide/workdir) [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/seq.rs:27:40 [INFO] [stderr] | [INFO] [stderr] 27 | type Result = result::Result>; [INFO] [stderr] | ^^^^^^^^^^^^ help: use `dyn`: `dyn error::Error` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(bare_trait_objects)]` on by default [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/classify.rs:130:17 [INFO] [stderr] | [INFO] [stderr] 130 | let mut haplotype; [INFO] [stderr] | ----^^^^^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_mut)]` on by default [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/threads.rs:86:25 [INFO] [stderr] | [INFO] [stderr] 86 | let mut haplotype; [INFO] [stderr] | ----^^^^^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/seq.rs:27:40 [INFO] [stderr] | [INFO] [stderr] 27 | type Result = result::Result>; [INFO] [stderr] | ^^^^^^^^^^^^ help: use `dyn`: `dyn error::Error` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(bare_trait_objects)]` on by default [INFO] [stderr] [INFO] [stderr] warning: 3 warnings emitted [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/classify.rs:130:17 [INFO] [stderr] | [INFO] [stderr] 130 | let mut haplotype; [INFO] [stderr] | ----^^^^^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_mut)]` on by default [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/threads.rs:86:25 [INFO] [stderr] | [INFO] [stderr] 86 | let mut haplotype; [INFO] [stderr] | ----^^^^^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] [INFO] [stderr] warning: 3 warnings emitted [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/bin/classify_by_kmers.rs:12:35 [INFO] [stderr] | [INFO] [stderr] 12 | type BoxResult = Result>; [INFO] [stderr] | ^^^^^^^^^^^^ help: use `dyn`: `dyn error::Error` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(bare_trait_objects)]` on by default [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/bin/classify_by_kmers.rs:12:35 [INFO] [stderr] | [INFO] [stderr] 12 | type BoxResult = Result>; [INFO] [stderr] | ^^^^^^^^^^^^ help: use `dyn`: `dyn error::Error` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(bare_trait_objects)]` on by default [INFO] [stderr] [INFO] [stderr] warning: 1 warning emitted [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/bin/classify_by_alignment.rs:13:35 [INFO] [stderr] | [INFO] [stderr] 13 | type BoxResult = Result>; [INFO] [stderr] | ^^^^^^^^^^^^ help: use `dyn`: `dyn error::Error` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(bare_trait_objects)]` on by default [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/bin/classify_by_alignment.rs:13:35 [INFO] [stderr] | [INFO] [stderr] 13 | type BoxResult = Result>; [INFO] [stderr] | ^^^^^^^^^^^^ help: use `dyn`: `dyn error::Error` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(bare_trait_objects)]` on by default [INFO] [stderr] [INFO] [stderr] warning: 1 warning emitted [INFO] [stderr] [INFO] [stderr] warning: 1 warning emitted [INFO] [stderr] [INFO] [stderr] warning: 1 warning emitted [INFO] [stderr] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 3m 29s [INFO] running `"docker" "inspect" "a184b2dcb238f03935570b1e12eed1aa4a3df14b07a5b3ab8211bbdf0c33198f"` [INFO] running `"docker" "rm" "-f" "a184b2dcb238f03935570b1e12eed1aa4a3df14b07a5b3ab8211bbdf0c33198f"` [INFO] [stdout] a184b2dcb238f03935570b1e12eed1aa4a3df14b07a5b3ab8211bbdf0c33198f