[INFO] updating cached repository esrice/trio_binning [INFO] running `"git" "fetch" "--all"` [INFO] [stdout] Fetching origin [INFO] [stderr] From git://github.com/esrice/trio_binning [INFO] [stderr] * branch HEAD -> FETCH_HEAD [INFO] running `"git" "clone" "work/cache/sources/gh/esrice/trio_binning" "work/ex/beta-1.37-6/sources/1.36.0/gh/esrice/trio_binning"` [INFO] [stderr] Cloning into 'work/ex/beta-1.37-6/sources/1.36.0/gh/esrice/trio_binning'... [INFO] [stderr] done. [INFO] running `"git" "clone" "work/cache/sources/gh/esrice/trio_binning" "work/ex/beta-1.37-6/sources/beta-2019-07-23/gh/esrice/trio_binning"` [INFO] [stderr] Cloning into 'work/ex/beta-1.37-6/sources/beta-2019-07-23/gh/esrice/trio_binning'... [INFO] [stderr] done. [INFO] running `"git" "rev-parse" "HEAD"` [INFO] [stdout] dfbf9bf5b607849a4d23f31002da129d8e7a8057 [INFO] sha for GitHub repo esrice/trio_binning: dfbf9bf5b607849a4d23f31002da129d8e7a8057 [INFO] validating manifest of esrice/trio_binning on toolchain 1.36.0 [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+1.36.0" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] validating manifest of esrice/trio_binning on toolchain beta-2019-07-23 [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+beta-2019-07-23" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] started frobbing esrice/trio_binning [INFO] finished frobbing esrice/trio_binning [INFO] frobbed toml for esrice/trio_binning written to work/ex/beta-1.37-6/sources/1.36.0/gh/esrice/trio_binning/Cargo.toml [INFO] started frobbing esrice/trio_binning [INFO] finished frobbing esrice/trio_binning [INFO] frobbed toml for esrice/trio_binning written to work/ex/beta-1.37-6/sources/beta-2019-07-23/gh/esrice/trio_binning/Cargo.toml [INFO] crate esrice/trio_binning already has a lockfile, it will not be regenerated [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+1.36.0" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+beta-2019-07-23" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] testing esrice/trio_binning against beta-2019-07-23 for beta-1.37-6 [INFO] running `"docker" "create" "-v" "/mnt/big/crater/work/local/target-dirs/beta-1.37-6/worker-4/beta-2019-07-23:/opt/crater/target:rw,Z" "-v" "/mnt/big/crater/work/ex/beta-1.37-6/sources/beta-2019-07-23/gh/esrice/trio_binning:/opt/crater/workdir:ro,Z" "-v" "/mnt/big/crater/work/local/cargo-home:/opt/crater/cargo-home:ro,Z" "-v" "/mnt/big/crater/work/local/rustup-home:/opt/crater/rustup-home:ro,Z" "-e" "USER_ID=1000" "-e" "SOURCE_DIR=/opt/crater/workdir" "-e" "MAP_USER_ID=1000" "-e" "CARGO_TARGET_DIR=/opt/crater/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "CARGO_HOME=/opt/crater/cargo-home" "-e" "RUSTUP_HOME=/opt/crater/rustup-home" "-w" "/opt/crater/workdir" "-m" "1536M" "--network" "none" "rustops/crates-build-env" "/opt/crater/cargo-home/bin/cargo" "+beta-2019-07-23" "build" "--frozen"` [INFO] [stdout] 6efa08462eca319f88099c980fd717ce5d7a6adc0fa20173260615e5b7a35d58 [INFO] running `"docker" "start" "-a" "6efa08462eca319f88099c980fd717ce5d7a6adc0fa20173260615e5b7a35d58"` [INFO] [stderr] Compiling bindgen v0.36.1 [INFO] [stderr] Compiling termcolor v1.0.1 [INFO] [stderr] Compiling serde v1.0.72 [INFO] [stderr] Compiling linear-map v1.2.0 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling ieee754 v0.2.2 [INFO] [stderr] Compiling term_size v0.3.1 [INFO] [stderr] Compiling clang-sys v0.22.0 [INFO] [stderr] Compiling which v1.0.5 [INFO] [stderr] Compiling bzip2-sys v0.1.6 (https://github.com/alexcrichton/bzip2-rs.git#54aef435) [INFO] [stderr] Compiling slice-deque v0.1.11 [INFO] [stderr] Compiling log v0.4.4 [INFO] [stderr] Compiling fs-utils v1.1.0 [INFO] [stderr] Compiling libz-sys v1.0.25 [INFO] [stderr] Compiling lzma-sys v0.1.11 [INFO] [stderr] Compiling itertools v0.6.5 [INFO] [stderr] Compiling textwrap v0.10.0 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling buf_redux v0.7.1 [INFO] [stderr] Compiling parking_lot_core v0.2.14 [INFO] [stderr] Compiling syn v0.14.9 [INFO] [stderr] Compiling flate2 v1.0.2 [INFO] [stderr] Compiling regex v0.2.11 [INFO] [stderr] Compiling crossbeam-deque v0.5.2 [INFO] [stderr] Compiling clap v2.32.0 [INFO] [stderr] Compiling env_logger v0.5.12 [INFO] [stderr] Compiling parking_lot v0.6.3 [INFO] [stderr] Compiling crossbeam-channel v0.2.4 [INFO] [stderr] Compiling crossbeam v0.4.1 [INFO] [stderr] Compiling serde_derive v1.0.72 [INFO] [stderr] Compiling bio-types v0.2.0 [INFO] [stderr] Compiling 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] Compiling trio_binning v0.1.0 (/opt/crater/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:128:17 [INFO] [stderr] | [INFO] [stderr] 128 | 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/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_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] Finished dev [unoptimized + debuginfo] target(s) in 2m 29s [INFO] running `"docker" "inspect" "6efa08462eca319f88099c980fd717ce5d7a6adc0fa20173260615e5b7a35d58"` [INFO] running `"docker" "rm" "-f" "6efa08462eca319f88099c980fd717ce5d7a6adc0fa20173260615e5b7a35d58"` [INFO] [stdout] 6efa08462eca319f88099c980fd717ce5d7a6adc0fa20173260615e5b7a35d58 [INFO] running `"docker" "create" "-v" "/mnt/big/crater/work/local/target-dirs/beta-1.37-6/worker-4/beta-2019-07-23:/opt/crater/target:rw,Z" "-v" "/mnt/big/crater/work/ex/beta-1.37-6/sources/beta-2019-07-23/gh/esrice/trio_binning:/opt/crater/workdir:ro,Z" "-v" "/mnt/big/crater/work/local/cargo-home:/opt/crater/cargo-home:ro,Z" "-v" "/mnt/big/crater/work/local/rustup-home:/opt/crater/rustup-home:ro,Z" "-e" "USER_ID=1000" "-e" "SOURCE_DIR=/opt/crater/workdir" "-e" "MAP_USER_ID=1000" "-e" "CARGO_TARGET_DIR=/opt/crater/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "CARGO_HOME=/opt/crater/cargo-home" "-e" "RUSTUP_HOME=/opt/crater/rustup-home" "-w" "/opt/crater/workdir" "-m" "1536M" "--network" "none" "rustops/crates-build-env" "/opt/crater/cargo-home/bin/cargo" "+beta-2019-07-23" "test" "--frozen" "--no-run"` [INFO] [stdout] a6fa3ad5e75a06238de2935935cb2d46dc1aed622299a65c31510497aa8e543a [INFO] running `"docker" "start" "-a" "a6fa3ad5e75a06238de2935935cb2d46dc1aed622299a65c31510497aa8e543a"` [INFO] [stderr] Compiling trio_binning v0.1.0 (/opt/crater/workdir) [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_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/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:128:17 [INFO] [stderr] | [INFO] [stderr] 128 | 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] Finished dev [unoptimized + debuginfo] target(s) in 3.23s [INFO] running `"docker" "inspect" "a6fa3ad5e75a06238de2935935cb2d46dc1aed622299a65c31510497aa8e543a"` [INFO] running `"docker" "rm" "-f" "a6fa3ad5e75a06238de2935935cb2d46dc1aed622299a65c31510497aa8e543a"` [INFO] [stdout] a6fa3ad5e75a06238de2935935cb2d46dc1aed622299a65c31510497aa8e543a [INFO] running `"docker" "create" "-v" "/mnt/big/crater/work/local/target-dirs/beta-1.37-6/worker-4/beta-2019-07-23:/opt/crater/target:rw,Z" "-v" "/mnt/big/crater/work/ex/beta-1.37-6/sources/beta-2019-07-23/gh/esrice/trio_binning:/opt/crater/workdir:ro,Z" "-v" "/mnt/big/crater/work/local/cargo-home:/opt/crater/cargo-home:ro,Z" "-v" "/mnt/big/crater/work/local/rustup-home:/opt/crater/rustup-home:ro,Z" "-e" "USER_ID=1000" "-e" "SOURCE_DIR=/opt/crater/workdir" "-e" "MAP_USER_ID=1000" "-e" "CARGO_TARGET_DIR=/opt/crater/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "CARGO_HOME=/opt/crater/cargo-home" "-e" "RUSTUP_HOME=/opt/crater/rustup-home" "-w" "/opt/crater/workdir" "-m" "1536M" "--network" "none" "rustops/crates-build-env" "/opt/crater/cargo-home/bin/cargo" "+beta-2019-07-23" "test" "--frozen"` [INFO] [stdout] 16057da80aed63b923b5ae4e9b1a0ef916fe6875ec2567e8218fffe6d2c19495 [INFO] running `"docker" "start" "-a" "16057da80aed63b923b5ae4e9b1a0ef916fe6875ec2567e8218fffe6d2c19495"` [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 0.12s [INFO] [stderr] Running /opt/crater/target/debug/deps/trio_binning-44ba8a1d9d626eef [INFO] [stdout] [INFO] [stdout] running 9 tests [INFO] [stdout] test kmer::tests::revcomp_reversible ... ok [INFO] [stdout] test kmer::tests::canonical ... ok [INFO] [stdout] test kmer::tests::bits_reversible ... ok [INFO] [stdout] test classify::tests::test_count ... ok [INFO] [stderr] Running /opt/crater/target/debug/deps/classify_by_alignment-bec184ef3350ed35 [INFO] [stdout] test kmer::tests::invalid_revcomp_base ... ok [INFO] [stdout] test kmer::tests::too_long_bits_to_kmer ... ok [INFO] [stdout] test kmer::tests::invalid_canonical ... ok [INFO] [stdout] test kmer::tests::too_long_kmer_to_bits ... ok [INFO] [stdout] test kmer::tests::invalid_kmer_base ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 9 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out [INFO] [stdout] [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] Running /opt/crater/target/debug/deps/classify_by_kmers-837eb868ade535a1 [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 trio_binning [INFO] [stdout] [INFO] [stdout] running 1 test [INFO] [stdout] test src/classify.rs - classify::open_writer (line 157) ... ignored [INFO] [stdout] [INFO] [stdout] test result: ok. 0 passed; 0 failed; 1 ignored; 0 measured; 0 filtered out [INFO] [stdout] [INFO] running `"docker" "inspect" "16057da80aed63b923b5ae4e9b1a0ef916fe6875ec2567e8218fffe6d2c19495"` [INFO] running `"docker" "rm" "-f" "16057da80aed63b923b5ae4e9b1a0ef916fe6875ec2567e8218fffe6d2c19495"` [INFO] [stdout] 16057da80aed63b923b5ae4e9b1a0ef916fe6875ec2567e8218fffe6d2c19495