[INFO] updating cached repository https://github.com/10XGenomics/rust-pseudoaligner [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] 7df39e186d4352c5c5a8af44262291a4c1c3cea9 [INFO] testing 10XGenomics/rust-pseudoaligner against beta-2020-06-03 for beta-1.45-1 [INFO] running `"git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Frust-pseudoaligner" "/workspace/builds/worker-11/source"` [INFO] [stderr] Cloning into '/workspace/builds/worker-11/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/10XGenomics/rust-pseudoaligner on toolchain beta-2020-06-03 [INFO] running `"/workspace/cargo-home/bin/cargo" "+beta-2020-06-03" "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-11/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" "+beta-2020-06-03" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/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=warn" "-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" "+beta-2020-06-03" "build" "--frozen"` [INFO] [stdout] 864df41d4a635646dd36b11cb6413e0fc0d8bbaf9d47d8a585ecc74a348bce59 [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" "864df41d4a635646dd36b11cb6413e0fc0d8bbaf9d47d8a585ecc74a348bce59"` [INFO] [stderr] sudo: setrlimit(RLIMIT_CORE): Operation not permitted [INFO] [stderr] Compiling proc-macro2 v1.0.8 [INFO] [stderr] Compiling syn v1.0.14 [INFO] [stderr] Compiling memchr v2.3.0 [INFO] [stderr] Compiling log v0.4.8 [INFO] [stderr] Compiling regex-syntax v0.6.13 [INFO] [stderr] Compiling futures-core v0.3.1 [INFO] [stderr] Compiling doc-comment v0.3.1 [INFO] [stderr] Compiling feature-probe v0.1.1 [INFO] [stderr] Compiling ndarray v0.13.0 [INFO] [stderr] Compiling bio v0.29.0 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling strum v0.16.0 [INFO] [stderr] Compiling min-max-heap v1.3.0 [INFO] [stderr] Compiling bytecount v0.6.0 [INFO] [stderr] Compiling rand v0.6.5 [INFO] [stderr] Compiling hashbrown v0.6.3 [INFO] [stderr] Compiling num-rational v0.2.3 [INFO] [stderr] Compiling wyhash v0.3.0 [INFO] [stderr] Compiling backtrace-sys v0.1.32 [INFO] [stderr] Compiling lz4-sys v1.8.3 [INFO] [stderr] Compiling pretty_assertions v0.5.1 [INFO] [stderr] Compiling rand_hc v0.1.0 [INFO] [stderr] Compiling rand_xorshift v0.1.1 [INFO] [stderr] Compiling rand_isaac v0.1.1 [INFO] [stderr] Compiling futures-channel v0.3.1 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling lock_api v0.3.3 [INFO] [stderr] Compiling rand v0.4.6 [INFO] [stderr] Compiling num_cpus v1.12.0 [INFO] [stderr] Compiling getrandom v0.1.14 [INFO] [stderr] Compiling rand_os v0.1.3 [INFO] [stderr] Compiling atty v0.2.14 [INFO] [stderr] Compiling rand v0.5.6 [INFO] [stderr] Compiling pulldown-cmark v0.2.0 [INFO] [stderr] Compiling rand_chacha v0.1.1 [INFO] [stderr] Compiling regex-automata v0.1.8 [INFO] [stderr] Compiling bv v0.11.0 [INFO] [stderr] Compiling itertools-num v0.1.3 [INFO] [stderr] Compiling approx v0.3.2 [INFO] [stderr] Compiling ordered-float v1.0.2 [INFO] [stderr] Compiling chrono v0.4.10 [INFO] [stderr] Compiling snafu-derive v0.5.0 [INFO] [stderr] Compiling tempdir v0.3.7 [INFO] [stderr] Compiling aho-corasick v0.7.6 [INFO] [stderr] Compiling csv-core v0.1.6 [INFO] [stderr] Compiling backtrace v0.3.42 [INFO] [stderr] Compiling quote v1.0.2 [INFO] [stderr] Compiling num v0.2.1 [INFO] [stderr] Compiling error-chain v0.12.1 [INFO] [stderr] Compiling statrs v0.11.0 [INFO] [stderr] Compiling regex v1.3.3 [INFO] [stderr] Compiling snafu v0.5.0 [INFO] [stderr] Compiling env_logger v0.6.2 [INFO] [stderr] Compiling 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 strum_macros v0.16.0 [INFO] [stderr] Compiling failure v0.1.6 [INFO] [stderr] Compiling const-random-macro v0.1.8 [INFO] [stderr] Compiling futures-macro v0.3.1 [INFO] [stderr] Compiling const-random v0.1.8 [INFO] [stderr] Compiling ahash v0.2.18 [INFO] [stderr] Compiling futures-util v0.3.1 [INFO] [stderr] Compiling serde v1.0.104 [INFO] [stderr] Compiling futures-executor v0.3.1 [INFO] [stderr] Compiling futures v0.3.1 [INFO] [stderr] Compiling semver v0.9.0 [INFO] [stderr] Compiling serde_json v1.0.45 [INFO] [stderr] Compiling smallvec v0.6.13 [INFO] [stderr] Compiling bstr v0.2.10 [INFO] [stderr] Compiling bio-types v0.5.1 [INFO] [stderr] Compiling multimap v0.6.0 [INFO] [stderr] Compiling vec_map v0.8.1 [INFO] [stderr] Compiling bincode v1.2.1 [INFO] [stderr] Compiling docopt v1.1.0 [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] Compiling crossbeam-epoch v0.8.0 [INFO] [stderr] Compiling csv v1.1.3 [INFO] [stderr] Compiling crossbeam-deque v0.7.2 [INFO] [stderr] Compiling cargo_metadata v0.6.4 [INFO] [stderr] Compiling rayon-core v1.7.0 [INFO] [stderr] Compiling dashmap v1.2.1 [INFO] [stderr] Compiling rayon v1.3.0 [INFO] [stderr] Compiling skeptic v0.13.4 [INFO] [stderr] Compiling lz4 v1.23.1 [INFO] [stderr] Compiling shardio v0.5.5 [INFO] [stderr] Compiling boomphf v0.5.2 [INFO] [stderr] Compiling debruijn v0.3.0 (https://github.com/10XGenomics/rust-debruijn#dc41dd29) [INFO] [stderr] Compiling debruijn_mapping v0.4.0 (/opt/rustwide/workdir) [INFO] [stderr] warning: unnecessary parentheses around type [INFO] [stderr] --> src/mappability.rs:120:67 [INFO] [stderr] | [INFO] [stderr] 120 | pub fn analyze_graph(index: &Pseudoaligner) -> Result<(Vec), Error> { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_parens)]` on by default [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'debruijn::msp::simple_scan': Please use the `Scanner` type instead [INFO] [stderr] --> src/build_index.rs:252:20 [INFO] [stderr] | [INFO] [stderr] 252 | let msps = debruijn::msp::simple_scan::<_, PmerType>(K::k(), contig, &PERM, !STRANDED); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(deprecated)]` on by default [INFO] [stderr] [INFO] [stderr] warning: 2 warnings emitted [INFO] [stderr] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 3m 11s [INFO] running `"docker" "inspect" "864df41d4a635646dd36b11cb6413e0fc0d8bbaf9d47d8a585ecc74a348bce59"` [INFO] running `"docker" "rm" "-f" "864df41d4a635646dd36b11cb6413e0fc0d8bbaf9d47d8a585ecc74a348bce59"` [INFO] [stdout] 864df41d4a635646dd36b11cb6413e0fc0d8bbaf9d47d8a585ecc74a348bce59 [INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/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=warn" "-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" "+beta-2020-06-03" "test" "--frozen" "--no-run"` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] 8a261a50343b54936243e8bb9e084bb15967dcc4ece62b0b1ddbb1d53dac002f [INFO] running `"docker" "start" "-a" "8a261a50343b54936243e8bb9e084bb15967dcc4ece62b0b1ddbb1d53dac002f"` [INFO] [stderr] sudo: setrlimit(RLIMIT_CORE): Operation not permitted [INFO] [stderr] Compiling wait-timeout v0.2.0 [INFO] [stderr] Compiling rand_core v0.5.1 [INFO] [stderr] warning: unnecessary parentheses around type [INFO] [stderr] --> src/mappability.rs:120:67 [INFO] [stderr] | [INFO] [stderr] 120 | pub fn analyze_graph(index: &Pseudoaligner) -> Result<(Vec), Error> { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_parens)]` on by default [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'debruijn::msp::simple_scan': Please use the `Scanner` type instead [INFO] [stderr] --> src/build_index.rs:252:20 [INFO] [stderr] | [INFO] [stderr] 252 | let msps = debruijn::msp::simple_scan::<_, PmerType>(K::k(), contig, &PERM, !STRANDED); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(deprecated)]` on by default [INFO] [stderr] [INFO] [stderr] warning: 2 warnings emitted [INFO] [stderr] [INFO] [stderr] Compiling rand_chacha v0.2.1 [INFO] [stderr] Compiling rand v0.7.3 [INFO] [stderr] Compiling tempfile v3.1.0 [INFO] [stderr] Compiling rusty-fork v0.2.2 [INFO] [stderr] Compiling proptest v0.9.5 [INFO] [stderr] Compiling debruijn_mapping v0.4.0 (/opt/rustwide/workdir) [INFO] [stderr] warning: unnecessary parentheses around type [INFO] [stderr] --> src/mappability.rs:120:67 [INFO] [stderr] | [INFO] [stderr] 120 | pub fn analyze_graph(index: &Pseudoaligner) -> Result<(Vec), Error> { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_parens)]` on by default [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'debruijn::msp::simple_scan': Please use the `Scanner` type instead [INFO] [stderr] --> src/build_index.rs:252:20 [INFO] [stderr] | [INFO] [stderr] 252 | let msps = debruijn::msp::simple_scan::<_, PmerType>(K::k(), contig, &PERM, !STRANDED); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(deprecated)]` on by default [INFO] [stderr] [INFO] [stderr] warning: function is never used: `test_gencode_full_build` [INFO] [stderr] --> src/build_index.rs:402:8 [INFO] [stderr] | [INFO] [stderr] 402 | fn test_gencode_full_build() -> Result<(), Error> { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(dead_code)]` on by default [INFO] [stderr] [INFO] [stderr] warning: 3 warnings emitted [INFO] [stderr] [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 33.09s [INFO] running `"docker" "inspect" "8a261a50343b54936243e8bb9e084bb15967dcc4ece62b0b1ddbb1d53dac002f"` [INFO] running `"docker" "rm" "-f" "8a261a50343b54936243e8bb9e084bb15967dcc4ece62b0b1ddbb1d53dac002f"` [INFO] [stdout] 8a261a50343b54936243e8bb9e084bb15967dcc4ece62b0b1ddbb1d53dac002f [INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-11/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=warn" "-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" "+beta-2020-06-03" "test" "--frozen"` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] d9ce9e5e3e89cddcfa3596b0330d470f7939360f661938af18c9fec309ecca2b [INFO] running `"docker" "start" "-a" "d9ce9e5e3e89cddcfa3596b0330d470f7939360f661938af18c9fec309ecca2b"` [INFO] [stderr] sudo: setrlimit(RLIMIT_CORE): Operation not permitted [INFO] [stderr] warning: unnecessary parentheses around type [INFO] [stderr] --> src/mappability.rs:120:67 [INFO] [stderr] | [INFO] [stderr] 120 | pub fn analyze_graph(index: &Pseudoaligner) -> Result<(Vec), Error> { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_parens)]` on by default [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'debruijn::msp::simple_scan': Please use the `Scanner` type instead [INFO] [stderr] --> src/build_index.rs:252:20 [INFO] [stderr] | [INFO] [stderr] 252 | let msps = debruijn::msp::simple_scan::<_, PmerType>(K::k(), contig, &PERM, !STRANDED); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(deprecated)]` on by default [INFO] [stderr] [INFO] [stderr] warning: function is never used: `test_gencode_full_build` [INFO] [stderr] --> src/build_index.rs:402:8 [INFO] [stderr] | [INFO] [stderr] 402 | fn test_gencode_full_build() -> Result<(), Error> { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(dead_code)]` on by default [INFO] [stderr] [INFO] [stderr] warning: 3 warnings emitted [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around type [INFO] [stderr] --> src/mappability.rs:120:67 [INFO] [stderr] | [INFO] [stderr] 120 | pub fn analyze_graph(index: &Pseudoaligner) -> Result<(Vec), Error> { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_parens)]` on by default [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'debruijn::msp::simple_scan': Please use the `Scanner` type instead [INFO] [stderr] --> src/build_index.rs:252:20 [INFO] [stderr] | [INFO] [stderr] 252 | let msps = debruijn::msp::simple_scan::<_, PmerType>(K::k(), contig, &PERM, !STRANDED); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(deprecated)]` on by default [INFO] [stderr] [INFO] [stderr] warning: 2 warnings emitted [INFO] [stderr] [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 0.61s [INFO] [stderr] Running /opt/rustwide/target/debug/deps/debruijn_mapping-ac03963f65b30f9f [INFO] [stdout] [INFO] [stdout] running 4 tests [INFO] [stdout] test pseudoaligner::test::intersect_test ... ok [INFO] [stdout] test build_index::test::group_by_slices_test ... ok [INFO] [stdout] test pseudoaligner::test::intersect_prop_test ... ok [INFO] [stdout] test build_index::test::test_gencode_small_build ... test build_index::test::test_gencode_small_build has been running for over 60 seconds [INFO] [stdout] test build_index::test::test_gencode_small_build ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 4 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out [INFO] [stdout] [INFO] [stderr] Running /opt/rustwide/target/debug/deps/pseudoaligner-382e133885b3cd0e [INFO] [stdout] [INFO] [stdout] running 0 tests [INFO] [stdout] [INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out [INFO] [stdout] [INFO] [stderr] Doc-tests debruijn_mapping [INFO] [stderr] warning: unnecessary parentheses around type [INFO] [stderr] --> /opt/rustwide/workdir/src/mappability.rs:120:67 [INFO] [stderr] | [INFO] [stderr] 120 | pub fn analyze_graph(index: &Pseudoaligner) -> Result<(Vec), Error> { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_parens)]` on by default [INFO] [stderr] [INFO] [stderr] warning: 1 warning emitted [INFO] [stderr] [INFO] [stdout] [INFO] [stdout] running 0 tests [INFO] [stdout] [INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out [INFO] [stdout] [INFO] running `"docker" "inspect" "d9ce9e5e3e89cddcfa3596b0330d470f7939360f661938af18c9fec309ecca2b"` [INFO] running `"docker" "rm" "-f" "d9ce9e5e3e89cddcfa3596b0330d470f7939360f661938af18c9fec309ecca2b"` [INFO] [stdout] d9ce9e5e3e89cddcfa3596b0330d470f7939360f661938af18c9fec309ecca2b