[INFO] cloning repository https://github.com/10XGenomics/rust-pseudoaligner [INFO] running `"git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/10XGenomics/rust-pseudoaligner" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Frust-pseudoaligner"` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Frust-pseudoaligner'... [INFO] running `"git" "rev-parse" "HEAD"` [INFO] [stdout] f44c30fc1a6760a7a1ba79c4c95d92366bfc9c87 [INFO] checking 10XGenomics/rust-pseudoaligner against master#2748a9fd93dd1a00a4521f4f16de5befbf77f6cd for pr-62262-1 [INFO] running `"git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Frust-pseudoaligner" "/workspace/builds/worker-2/source"` [INFO] [stderr] Cloning into '/workspace/builds/worker-2/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/10XGenomics/rust-pseudoaligner on toolchain 2748a9fd93dd1a00a4521f4f16de5befbf77f6cd [INFO] running `"/workspace/cargo-home/bin/cargo" "+2748a9fd93dd1a00a4521f4f16de5befbf77f6cd" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] started tweaking git repo https://github.com/10XGenomics/rust-pseudoaligner [INFO] finished tweaking git repo https://github.com/10XGenomics/rust-pseudoaligner [INFO] tweaked toml for git repo https://github.com/10XGenomics/rust-pseudoaligner written to /workspace/builds/worker-2/source/Cargo.toml [INFO] crate git repo https://github.com/10XGenomics/rust-pseudoaligner already has a lockfile, it will not be regenerated [INFO] running `"/workspace/cargo-home/bin/cargo" "+2748a9fd93dd1a00a4521f4f16de5befbf77f6cd" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] error: the lock file /workspace/builds/worker-2/source/Cargo.lock needs to be updated but --locked was passed to prevent this [INFO] the lockfile is outdated, regenerating it [INFO] running `"/workspace/cargo-home/bin/cargo" "+2748a9fd93dd1a00a4521f4f16de5befbf77f6cd" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update"` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Updating git repository `https://github.com/10XGenomics/rust-debruijn` [INFO] [stderr] Updating git repository `https://github.com/k3yavi/pretty-env-logger` [INFO] running `"/workspace/cargo-home/bin/cargo" "+2748a9fd93dd1a00a4521f4f16de5befbf77f6cd" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2/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" "+2748a9fd93dd1a00a4521f4f16de5befbf77f6cd" "check" "--frozen" "--all" "--all-targets"` [INFO] [stdout] cfd46ab312a4fa244544e9768d9febc208f47e86a506d5dbecad83572378764b [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `"docker" "start" "-a" "cfd46ab312a4fa244544e9768d9febc208f47e86a506d5dbecad83572378764b"` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Compiling log v0.4.8 [INFO] [stderr] Compiling ndarray v0.9.1 [INFO] [stderr] Compiling bv v0.7.4 [INFO] [stderr] Checking wyhash v0.3.0 [INFO] [stderr] Compiling bincode v1.2.0 [INFO] [stderr] Checking bit-set v0.4.0 [INFO] [stderr] Checking concurrent-hashmap v0.2.2 [INFO] [stderr] Checking crossbeam-epoch v0.6.1 [INFO] [stderr] Checking crossbeam-epoch v0.5.2 [INFO] [stderr] Checking aho-corasick v0.6.10 [INFO] [stderr] Checking itertools-num v0.1.3 [INFO] [stderr] Checking num-iter v0.1.39 [INFO] [stderr] Checking statrs v0.9.0 [INFO] [stderr] Checking vec_map v0.8.1 [INFO] [stderr] Checking bio-types v0.5.1 [INFO] [stderr] Checking multimap v0.4.0 [INFO] [stderr] Checking num v0.2.0 [INFO] [stderr] Checking crossbeam-deque v0.5.2 [INFO] [stderr] Checking regex v0.2.11 [INFO] [stderr] Checking crossbeam-channel v0.2.6 [INFO] [stderr] Checking boomphf v0.5.2 [INFO] [stderr] Checking env_logger v0.5.13 [INFO] [stderr] Checking pretty_env_logger v0.2.3 (https://github.com/k3yavi/pretty-env-logger#57963895) [INFO] [stderr] Checking crossbeam v0.4.1 [INFO] [stderr] Checking debruijn v0.3.0 (https://github.com/10XGenomics/rust-debruijn#b3d5db74) [INFO] [stderr] Checking bio v0.22.0 [INFO] [stderr] Checking debruijn_mapping v0.2.0 (/opt/rustwide/workdir) [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/utils.rs:48:54 [INFO] [stderr] | [INFO] [stderr] 48 | fn _open_with_gz>(p: P) -> Result, Error> { [INFO] [stderr] | ^^^^^^^ help: use `dyn`: `dyn BufRead` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(bare_trait_objects)]` on by default [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'std::sync::ONCE_INIT': the `new` function is now preferred [INFO] [stderr] --> src/build_index.rs:82:1 [INFO] [stderr] | [INFO] [stderr] 82 | / lazy_static! { [INFO] [stderr] 83 | | static ref PERM: Vec = { [INFO] [stderr] 84 | | let maxp = 1 << (2 * PmerType::k()); [INFO] [stderr] 85 | | let mut permutation = Vec::with_capacity(maxp); [INFO] [stderr] ... | [INFO] [stderr] 90 | | }; [INFO] [stderr] 91 | | } [INFO] [stderr] | |_^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(deprecated)]` on by default [INFO] [stderr] = note: this warning originates in a macro outside of the current crate (in Nightly builds, run with -Z external-macro-backtrace for more info) [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/utils.rs:48:54 [INFO] [stderr] | [INFO] [stderr] 48 | fn _open_with_gz>(p: P) -> Result, Error> { [INFO] [stderr] | ^^^^^^^ help: use `dyn`: `dyn BufRead` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(bare_trait_objects)]` on by default [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'std::sync::ONCE_INIT': the `new` function is now preferred [INFO] [stderr] --> src/build_index.rs:82:1 [INFO] [stderr] | [INFO] [stderr] 82 | / lazy_static! { [INFO] [stderr] 83 | | static ref PERM: Vec = { [INFO] [stderr] 84 | | let maxp = 1 << (2 * PmerType::k()); [INFO] [stderr] 85 | | let mut permutation = Vec::with_capacity(maxp); [INFO] [stderr] ... | [INFO] [stderr] 90 | | }; [INFO] [stderr] 91 | | } [INFO] [stderr] | |_^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(deprecated)]` on by default [INFO] [stderr] = note: this warning originates in a macro outside of the current crate (in Nightly builds, run with -Z external-macro-backtrace for more info) [INFO] [stderr] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 54.97s [INFO] running `"docker" "inspect" "cfd46ab312a4fa244544e9768d9febc208f47e86a506d5dbecad83572378764b"` [INFO] running `"docker" "rm" "-f" "cfd46ab312a4fa244544e9768d9febc208f47e86a506d5dbecad83572378764b"` [INFO] [stdout] cfd46ab312a4fa244544e9768d9febc208f47e86a506d5dbecad83572378764b