[INFO] cloning repository https://github.com/10XGenomics/rust-pseudoaligner [INFO] running `Command { std: "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", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Frust-pseudoaligner'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 8533e36a8c7c70de23b57b088d382139fd4d6a2c [INFO] documenting 10XGenomics/rust-pseudoaligner against beta-2020-10-09 for beta-1.48-rustdoc-1 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Frust-pseudoaligner" "/workspace/builds/worker-0/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-0/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/10XGenomics/rust-pseudoaligner on toolchain beta-2020-10-09 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta-2020-10-09" "read-manifest" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [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-0/source/Cargo.toml [INFO] crate git repo https://github.com/10XGenomics/rust-pseudoaligner already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta-2020-10-09" "fetch" "--locked" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Updating git repository `https://github.com/10XGenomics/rust-debruijn` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded lz4 v1.23.1 [INFO] [stderr] Downloaded snafu v0.6.8 [INFO] [stderr] Downloaded snafu-derive v0.6.8 [INFO] [stderr] Downloaded bio v0.31.0 [INFO] [stderr] Downloaded pretty_assertions v0.5.1 [INFO] [stderr] Downloaded pretty_env_logger v0.3.1 [INFO] [stderr] Downloaded dashmap v1.2.1 [INFO] [stderr] Downloaded lz4-sys v1.8.3 [INFO] [stderr] Downloaded backtrace v0.3.42 [INFO] [stderr] Downloaded min-max-heap v1.3.0 [INFO] [stderr] Downloaded wyhash v0.3.0 [INFO] [stderr] Downloaded boomphf v0.5.2 [INFO] [stderr] Downloaded shardio v0.7.1 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/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" "rustops/crates-build-env@sha256:d92eaeed33fa75130ca1ee6c8a01d1ffb62bac859dfdfb3450e3e5d1c0146529" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2020-10-09" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] e9043151dcfa28ac171871467dad0091cf399a3805b187b4352d8bf4b9b5b37b [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" "e9043151dcfa28ac171871467dad0091cf399a3805b187b4352d8bf4b9b5b37b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "e9043151dcfa28ac171871467dad0091cf399a3805b187b4352d8bf4b9b5b37b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "e9043151dcfa28ac171871467dad0091cf399a3805b187b4352d8bf4b9b5b37b", kill_on_drop: false }` [INFO] [stdout] e9043151dcfa28ac171871467dad0091cf399a3805b187b4352d8bf4b9b5b37b [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/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" "RUSTDOCFLAGS=--cap-lints=warn" "-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" "rustops/crates-build-env@sha256:d92eaeed33fa75130ca1ee6c8a01d1ffb62bac859dfdfb3450e3e5d1c0146529" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2020-10-09" "doc" "--frozen" "--no-deps" "--document-private-items" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 1ad278241d71a89db9fe5a072c9262221ea17e42f7a7773c99c8cfb2fa14bd13 [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" "1ad278241d71a89db9fe5a072c9262221ea17e42f7a7773c99c8cfb2fa14bd13", kill_on_drop: false }` [INFO] [stderr] Compiling syn v1.0.7 [INFO] [stderr] Compiling memchr v2.3.0 [INFO] [stderr] Compiling log v0.4.8 [INFO] [stderr] Checking regex-syntax v0.6.13 [INFO] [stderr] Checking futures-core v0.3.1 [INFO] [stderr] Compiling feature-probe v0.1.1 [INFO] [stderr] Compiling doc-comment v0.3.1 [INFO] [stderr] Compiling ndarray v0.13.0 [INFO] [stderr] Checking bit-vec v0.5.1 [INFO] [stderr] Checking bit-vec v0.4.4 [INFO] [stderr] Compiling bio v0.31.0 [INFO] [stderr] Checking min-max-heap v1.3.0 [INFO] [stderr] Checking strum v0.16.0 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking bytecount v0.6.0 [INFO] [stderr] Compiling num-rational v0.2.3 [INFO] [stderr] Checking wyhash v0.3.0 [INFO] [stderr] Checking itertools v0.7.11 [INFO] [stderr] Checking pretty_assertions v0.5.1 [INFO] [stderr] Checking bit-set v0.5.1 [INFO] [stderr] Checking futures-channel v0.3.1 [INFO] [stderr] Checking lock_api v0.3.3 [INFO] [stderr] Checking rand v0.5.6 [INFO] [stderr] Compiling backtrace-sys v0.1.32 [INFO] [stderr] Checking regex-automata v0.1.8 [INFO] [stderr] Checking lz4-sys v1.8.3 [INFO] [stderr] Checking bit-set v0.4.0 [INFO] [stderr] Checking itertools-num v0.1.3 [INFO] [stderr] Checking ordered-float v1.0.2 [INFO] [stderr] Compiling bv v0.11.0 [INFO] [stderr] Checking rand v0.6.5 [INFO] [stderr] Checking chrono v0.4.10 [INFO] [stderr] Compiling backtrace v0.3.42 [INFO] [stderr] Compiling error-chain v0.12.1 [INFO] [stderr] Checking aho-corasick v0.7.6 [INFO] [stderr] Checking csv-core v0.1.6 [INFO] [stderr] Checking num v0.2.1 [INFO] [stderr] Checking statrs v0.11.0 [INFO] [stderr] Checking regex v1.3.3 [INFO] [stderr] Checking env_logger v0.6.2 [INFO] [stderr] Checking pretty_env_logger v0.3.1 [INFO] [stderr] Compiling synstructure v0.12.3 [INFO] [stderr] Compiling serde_derive v1.0.104 [INFO] [stderr] Compiling proc-macro-hack v0.5.11 [INFO] [stderr] Compiling failure_derive v0.1.6 [INFO] [stderr] Compiling snafu-derive v0.6.8 [INFO] [stderr] Compiling strum_macros v0.16.0 [INFO] [stderr] Compiling getset v0.0.9 [INFO] [stderr] Checking failure v0.1.6 [INFO] [stderr] Compiling const-random-macro v0.1.8 [INFO] [stderr] Compiling futures-macro v0.3.1 [INFO] [stderr] Checking const-random v0.1.8 [INFO] [stderr] Checking ahash v0.2.18 [INFO] [stderr] Checking hashbrown v0.6.3 [INFO] [stderr] Checking snafu v0.6.8 [INFO] [stderr] Checking futures-util v0.3.1 [INFO] [stderr] Checking futures-executor v0.3.1 [INFO] [stderr] Checking futures v0.3.1 [INFO] [stderr] Compiling serde v1.0.104 [INFO] [stderr] Checking smallvec v0.6.13 [INFO] [stderr] Checking bstr v0.2.10 [INFO] [stderr] Checking bio-types v0.5.1 [INFO] [stderr] Checking serde_json v1.0.45 [INFO] [stderr] Checking bincode v1.2.1 [INFO] [stderr] Checking vec_map v0.8.1 [INFO] [stderr] Checking multimap v0.6.0 [INFO] [stderr] Checking docopt v1.1.0 [INFO] [stderr] Compiling semver v0.9.0 [INFO] [stderr] Checking csv v1.1.3 [INFO] [stderr] Compiling rustc_version v0.2.3 [INFO] [stderr] Compiling memoffset v0.5.3 [INFO] [stderr] Compiling parking_lot_core v0.6.2 [INFO] [stderr] Compiling parking_lot v0.9.0 [INFO] [stderr] Checking crossbeam-epoch v0.8.0 [INFO] [stderr] Compiling cargo_metadata v0.6.4 [INFO] [stderr] Checking dashmap v1.2.1 [INFO] [stderr] Checking crossbeam-deque v0.7.2 [INFO] [stderr] Checking rayon-core v1.7.0 [INFO] [stderr] Compiling skeptic v0.13.4 [INFO] [stderr] Checking rayon v1.3.0 [INFO] [stderr] Compiling lz4 v1.23.1 [INFO] [stderr] Checking shardio v0.7.1 [INFO] [stderr] Checking boomphf v0.5.2 [INFO] [stderr] Checking debruijn v0.3.0 (https://github.com/10XGenomics/rust-debruijn#dc41dd29) [INFO] [stderr] Checking debruijn_mapping v0.4.0 (/opt/rustwide/workdir) [INFO] [stderr] Documenting debruijn_mapping v0.4.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unnecessary parentheses around type [INFO] [stdout] --> src/mappability.rs:120:67 [INFO] [stdout] | [INFO] [stdout] 120 | pub fn analyze_graph(index: &Pseudoaligner) -> Result<(Vec), Error> { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_parens)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated function `debruijn::msp::simple_scan`: Please use the `Scanner` type instead [INFO] [stdout] --> src/build_index.rs:252:20 [INFO] [stdout] | [INFO] [stdout] 252 | let msps = debruijn::msp::simple_scan::<_, PmerType>(K::k(), contig, &PERM, !STRANDED); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(deprecated)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unnecessary parentheses around type [INFO] [stdout] --> src/mappability.rs:120:67 [INFO] [stdout] | [INFO] [stdout] 120 | pub fn analyze_graph(index: &Pseudoaligner) -> Result<(Vec), Error> { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_parens)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 2 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unresolved link to `index` [INFO] [stdout] --> src/scatter.rs:4:9 [INFO] [stdout] | [INFO] [stdout] 4 | /// vec[index] = value efficiently. [INFO] [stdout] | ^^^^^ the module `scatter` contains no item named `index` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(broken_intra_doc_links)]` on by default [INFO] [stdout] = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unresolved link to `index` [INFO] [stdout] --> src/scatter.rs:63:18 [INFO] [stdout] | [INFO] [stdout] 63 | /// Set data[index] = value in the data slice. [INFO] [stdout] | ^^^^^ the module `scatter` contains no item named `index` [INFO] [stdout] | [INFO] [stdout] = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 3 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 1m 20s [INFO] running `Command { std: "docker" "inspect" "1ad278241d71a89db9fe5a072c9262221ea17e42f7a7773c99c8cfb2fa14bd13", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "1ad278241d71a89db9fe5a072c9262221ea17e42f7a7773c99c8cfb2fa14bd13", kill_on_drop: false }` [INFO] [stdout] 1ad278241d71a89db9fe5a072c9262221ea17e42f7a7773c99c8cfb2fa14bd13