[INFO] updating cached repository https://github.com/chfi/rust-qtlreaper [INFO] running `"git" "-c" "credential.helper=" "-c" "credential.helper=/big/crater/work/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] 2e7fed6d45b0b602d80fa2a55835f96ef1cba9e3 [INFO] testing chfi/rust-qtlreaper against 1.38.0 for beta-1.39-1 [INFO] running `"git" "clone" "work/cache/git-repos/https%3A%2F%2Fgithub.com%2Fchfi%2Frust-qtlreaper" "work/builds/worker-0/source"` [INFO] [stderr] Cloning into 'work/builds/worker-0/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/chfi/rust-qtlreaper on toolchain 1.38.0 [INFO] running `"/big/crater/work/cargo-home/bin/cargo" "+1.38.0" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] started tweaking git repo https://github.com/chfi/rust-qtlreaper [INFO] finished tweaking git repo https://github.com/chfi/rust-qtlreaper [INFO] tweaked toml for git repo https://github.com/chfi/rust-qtlreaper written to work/builds/worker-0/source/Cargo.toml [INFO] crate git repo https://github.com/chfi/rust-qtlreaper already has a lockfile, it will not be regenerated [INFO] running `"/big/crater/work/cargo-home/bin/cargo" "+1.38.0" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] [stderr] error: the lock file /big/crater/work/builds/worker-0/source/Cargo.lock needs to be updated but --locked was passed to prevent this [INFO] the lockfile is outdated, regenerating it [INFO] running `"/big/crater/work/cargo-home/bin/cargo" "+1.38.0" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update"` [INFO] running `"/big/crater/work/cargo-home/bin/cargo" "+1.38.0" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] running `"docker" "create" "-v" "/big/crater/work/builds/worker-0/target:/opt/rustwide/target:rw,Z" "-v" "/big/crater/work/builds/worker-0/source:/opt/rustwide/workdir:ro,Z" "-v" "/big/crater/work/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/big/crater/work/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "MAP_USER_ID=1000" "-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" "+1.38.0" "build" "--frozen"` [INFO] [stdout] 0006b61307c8e44d4a3d893662e5b62506d4d7e524b01a22d986082193666013 [INFO] running `"docker" "start" "-a" "0006b61307c8e44d4a3d893662e5b62506d4d7e524b01a22d986082193666013"` [INFO] [stderr] Compiling num-complex v0.2.3 [INFO] [stderr] Compiling itertools v0.7.11 [INFO] [stderr] Compiling structopt v0.2.18 [INFO] [stderr] Compiling ndarray v0.12.1 [INFO] [stderr] Compiling qtlreaper v0.1.4 (/opt/rustwide/workdir) [INFO] [stderr] warning: unused `#[macro_use]` import [INFO] [stderr] --> src/lib.rs:5:22 [INFO] [stderr] | [INFO] [stderr] 5 | #[macro_use(s, azip, array)] [INFO] [stderr] | ^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` on by default [INFO] [stderr] [INFO] [stderr] warning: constant item is never used: `PERMUTATION_TESTSIZE` [INFO] [stderr] --> src/regression.rs:5:1 [INFO] [stderr] | [INFO] [stderr] 5 | const PERMUTATION_TESTSIZE: usize = 1000; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(dead_code)]` on by default [INFO] [stderr] [INFO] [stderr] warning: function is never used: `regression_2n_variance` [INFO] [stderr] --> src/regression.rs:250:1 [INFO] [stderr] | [INFO] [stderr] 250 | / fn regression_2n_variance( [INFO] [stderr] 251 | | traits: &[f64], [INFO] [stderr] 252 | | genotypes: &[f64], [INFO] [stderr] 253 | | variance: &[f64], [INFO] [stderr] ... | [INFO] [stderr] 297 | | } [INFO] [stderr] 298 | | } [INFO] [stderr] | |_^ [INFO] [stderr] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 20.82s [INFO] running `"docker" "inspect" "0006b61307c8e44d4a3d893662e5b62506d4d7e524b01a22d986082193666013"` [INFO] running `"docker" "rm" "-f" "0006b61307c8e44d4a3d893662e5b62506d4d7e524b01a22d986082193666013"` [INFO] [stdout] 0006b61307c8e44d4a3d893662e5b62506d4d7e524b01a22d986082193666013 [INFO] running `"docker" "create" "-v" "/big/crater/work/builds/worker-0/target:/opt/rustwide/target:rw,Z" "-v" "/big/crater/work/builds/worker-0/source:/opt/rustwide/workdir:ro,Z" "-v" "/big/crater/work/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/big/crater/work/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "MAP_USER_ID=1000" "-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" "+1.38.0" "test" "--frozen" "--no-run"` [INFO] [stdout] d8aed6a72bb9daafdde458b3d16152bd9087e7a0cbcd6b808b8bf1ad0ffcc54c [INFO] running `"docker" "start" "-a" "d8aed6a72bb9daafdde458b3d16152bd9087e7a0cbcd6b808b8bf1ad0ffcc54c"` [INFO] [stderr] Compiling qtlreaper v0.1.4 (/opt/rustwide/workdir) [INFO] [stderr] warning: constant item is never used: `PERMUTATION_TESTSIZE` [INFO] [stderr] --> src/regression.rs:5:1 [INFO] [stderr] | [INFO] [stderr] 5 | const PERMUTATION_TESTSIZE: usize = 1000; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(dead_code)]` on by default [INFO] [stderr] [INFO] [stderr] warning: function is never used: `regression_2n_variance` [INFO] [stderr] --> src/regression.rs:250:1 [INFO] [stderr] | [INFO] [stderr] 250 | / fn regression_2n_variance( [INFO] [stderr] 251 | | traits: &[f64], [INFO] [stderr] 252 | | genotypes: &[f64], [INFO] [stderr] 253 | | variance: &[f64], [INFO] [stderr] ... | [INFO] [stderr] 297 | | } [INFO] [stderr] 298 | | } [INFO] [stderr] | |_^ [INFO] [stderr] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 2.02s [INFO] running `"docker" "inspect" "d8aed6a72bb9daafdde458b3d16152bd9087e7a0cbcd6b808b8bf1ad0ffcc54c"` [INFO] running `"docker" "rm" "-f" "d8aed6a72bb9daafdde458b3d16152bd9087e7a0cbcd6b808b8bf1ad0ffcc54c"` [INFO] [stdout] d8aed6a72bb9daafdde458b3d16152bd9087e7a0cbcd6b808b8bf1ad0ffcc54c [INFO] running `"docker" "create" "-v" "/big/crater/work/builds/worker-0/target:/opt/rustwide/target:rw,Z" "-v" "/big/crater/work/builds/worker-0/source:/opt/rustwide/workdir:ro,Z" "-v" "/big/crater/work/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/big/crater/work/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "MAP_USER_ID=1000" "-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" "+1.38.0" "test" "--frozen"` [INFO] [stdout] fa7756ab8317d1512ef01cb38cb6f3cfcf5a7b21a0e9f436d46c7e00f3d3c5ea [INFO] running `"docker" "start" "-a" "fa7756ab8317d1512ef01cb38cb6f3cfcf5a7b21a0e9f436d46c7e00f3d3c5ea"` [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 0.03s [INFO] [stderr] Running /opt/rustwide/target/debug/deps/qtlreaper-56f6b30a789fca8a [INFO] [stdout] [INFO] [stdout] running 3 tests [INFO] [stdout] test geneobject::tests::it_can_parse_metadata ... ok [INFO] [stdout] test geneobject::tests::it_can_parse_header ... ok [INFO] [stdout] test geneobject::tests::it_can_estimate_unknown_genotypes ... FAILED [INFO] [stdout] [INFO] [stdout] failures: [INFO] [stdout] [INFO] [stdout] ---- geneobject::tests::it_can_estimate_unknown_genotypes stdout ---- [INFO] [stdout] thread 'geneobject::tests::it_can_estimate_unknown_genotypes' panicked at 'assertion failed: `(left == right)` [INFO] [stdout] left: `[Locus { dominance: None, genotype: [Mat, Mat, Pat] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [-1.0, -1.0, 1.0] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk1", centi_morgan: 10.0, mega_basepair: None, chromosome: "1" } }, Locus { dominance: None, genotype: [Unk, Pat, Unk] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [-0.18523506128077272, 1.0, 0.9616255554798838] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk2", centi_morgan: 30.3, mega_basepair: None, chromosome: "1" } }, Locus { dominance: None, genotype: [Unk, Unk, Pat] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [0.18906668494617707, 0.3421367343627406, 1.0] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk3", centi_morgan: 40.1, mega_basepair: None, chromosome: "1" } }, Locus { dominance: None, genotype: [Unk, Unk, Unk] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [0.5826065314914579, -0.32233300305265566, 0.3223330030526552] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk4", centi_morgan: 50.2, mega_basepair: None, chromosome: "1" } }, Locus { dominance: None, genotype: [Pat, Mat, Unk] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [1.0, -1.0, -0.34213673436274084] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk5", centi_morgan: 60.3, mega_basepair: None, chromosome: "1" } }, Locus { dominance: None, genotype: [Pat, Mat, Mat] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [1.0, -1.0, -1.0] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk6", centi_morgan: 70.1, mega_basepair: None, chromosome: "1" } }]`, [INFO] [stdout] right: `[Locus { dominance: None, genotype: [Mat, Mat, Pat] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [-1.0, -1.0, 1.0] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk1", centi_morgan: 10.0, mega_basepair: None, chromosome: "1" } }, Locus { dominance: None, genotype: [Unk, Pat, Unk] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [-0.18523506128077272, 1.0, 0.9616255554798838] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk2", centi_morgan: 30.3, mega_basepair: None, chromosome: "1" } }, Locus { dominance: None, genotype: [Unk, Unk, Pat] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [0.18906668494617707, 0.3421367343627405, 1.0] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk3", centi_morgan: 40.1, mega_basepair: None, chromosome: "1" } }, Locus { dominance: None, genotype: [Unk, Unk, Unk] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [0.5826065314914579, -0.3223330030526561, 0.3223330030526552] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk4", centi_morgan: 50.2, mega_basepair: None, chromosome: "1" } }, Locus { dominance: None, genotype: [Pat, Mat, Unk] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [1.0, -1.0, -0.34213673436274084] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk5", centi_morgan: 60.3, mega_basepair: None, chromosome: "1" } }, Locus { dominance: None, genotype: [Pat, Mat, Mat] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, genoprob: [1.0, -1.0, -1.0] shape=[3], strides=[1], layout=C | F (0x3), const ndim=1, marker: Marker { name: "Mk6", centi_morgan: 70.1, mega_basepair: None, chromosome: "1" } }]`', src/geneobject.rs:886:9 [INFO] [stdout] stack backtrace: [INFO] [stdout] 0: 0x564c4eb0d09b - backtrace::backtrace::libunwind::trace::h89fcc71e59e3bc5b [INFO] [stdout] at /cargo/registry/src/github.com-1ecc6299db9ec823/backtrace-0.3.34/src/backtrace/libunwind.rs:88 [INFO] [stdout] 1: 0x564c4eb0d09b - backtrace::backtrace::trace_unsynchronized::h0bad9be1379e729a [INFO] [stdout] at /cargo/registry/src/github.com-1ecc6299db9ec823/backtrace-0.3.34/src/backtrace/mod.rs:66 [INFO] [stdout] 2: 0x564c4eb0d09b - std::sys_common::backtrace::_print::hd3382a1f33c473da [INFO] [stdout] at src/libstd/sys_common/backtrace.rs:47 [INFO] [stdout] 3: 0x564c4eb0d09b - std::sys_common::backtrace::print::h0ec6f03cfb8e76a6 [INFO] [stdout] at src/libstd/sys_common/backtrace.rs:36 [INFO] [stdout] 4: 0x564c4eb0d09b - std::panicking::default_hook::{{closure}}::h96cbf7b454e3f557 [INFO] [stdout] at src/libstd/panicking.rs:200 [INFO] [stdout] 5: 0x564c4eb0cd0c - std::panicking::default_hook::h95a8f00337383d83 [INFO] [stdout] at src/libstd/panicking.rs:211 [INFO] [stdout] 6: 0x564c4eb0d80d - std::panicking::rust_panic_with_hook::h92f98b46e22f14ed [INFO] [stdout] at src/libstd/panicking.rs:477 [INFO] [stdout] 7: 0x564c4eb0d392 - std::panicking::continue_panic_fmt::h25abfbb4e5b7043a [INFO] [stdout] at src/libstd/panicking.rs:384 [INFO] [stdout] 8: 0x564c4eb0d2df - std::panicking::begin_panic_fmt::hc33ce01c7f7cd52d [INFO] [stdout] at src/libstd/panicking.rs:339 [INFO] [stdout] 9: 0x564c4eaa6f75 - qtlreaper::geneobject::tests::it_can_estimate_unknown_genotypes::h1cebd0b080d58fbc [INFO] [stdout] at src/geneobject.rs:886 [INFO] [stdout] 10: 0x564c4eaa4d5a - qtlreaper::geneobject::tests::it_can_estimate_unknown_genotypes::{{closure}}::h63437e97ef86fdae [INFO] [stdout] at src/geneobject.rs:799 [INFO] [stdout] 11: 0x564c4eaa108e - core::ops::function::FnOnce::call_once::h1312abdef28a6060 [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/libcore/ops/function.rs:235 [INFO] [stdout] 12: 0x564c4eab766f - as core::ops::function::FnOnce>::call_once::hac0fbe2754f8bd24 [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/liballoc/boxed.rs:787 [INFO] [stdout] 13: 0x564c4eb0ff5a - __rust_maybe_catch_panic [INFO] [stdout] at src/libpanic_unwind/lib.rs:80 [INFO] [stdout] 14: 0x564c4ead1c5e - std::panicking::try::h9d6938917cc05e3f [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/libstd/panicking.rs:275 [INFO] [stdout] 15: 0x564c4ead1c5e - std::panic::catch_unwind::h5be70fd1d69515b0 [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/libstd/panic.rs:394 [INFO] [stdout] 16: 0x564c4ead1c5e - test::run_test::run_test_inner::{{closure}}::h056f206eafd8ff6e [INFO] [stdout] at src/libtest/lib.rs:1408 [INFO] [stdout] 17: 0x564c4eaad095 - std::sys_common::backtrace::__rust_begin_short_backtrace::h859abbc742a34b19 [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/libstd/sys_common/backtrace.rs:77 [INFO] [stdout] 18: 0x564c4eab11d5 - std::thread::Builder::spawn_unchecked::{{closure}}::{{closure}}::hf8192ec938c43694 [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/libstd/thread/mod.rs:470 [INFO] [stdout] 19: 0x564c4eab11d5 - as core::ops::function::FnOnce<()>>::call_once::hae7b2431555cb4db [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/libstd/panic.rs:315 [INFO] [stdout] 20: 0x564c4eab11d5 - std::panicking::try::do_call::h6da7ecd0783259d7 [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/libstd/panicking.rs:296 [INFO] [stdout] 21: 0x564c4eb0ff5a - __rust_maybe_catch_panic [INFO] [stdout] at src/libpanic_unwind/lib.rs:80 [INFO] [stdout] 22: 0x564c4eab17b2 - std::panicking::try::h3c1c35414c2c78f1 [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/libstd/panicking.rs:275 [INFO] [stdout] 23: 0x564c4eab17b2 - std::panic::catch_unwind::ha5cfb2018fda983e [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/libstd/panic.rs:394 [INFO] [stdout] 24: 0x564c4eab17b2 - std::thread::Builder::spawn_unchecked::{{closure}}::hc7620e41f0938c09 [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/libstd/thread/mod.rs:469 [INFO] [stdout] 25: 0x564c4eab17b2 - core::ops::function::FnOnce::call_once{{vtable.shim}}::h1b3b20eeb6ea6ddd [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/libcore/ops/function.rs:235 [INFO] [stdout] 26: 0x564c4eb02d5f - as core::ops::function::FnOnce>::call_once::h2877b2aefb0fd627 [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/liballoc/boxed.rs:787 [INFO] [stdout] 27: 0x564c4eb0f690 - as core::ops::function::FnOnce>::call_once::h13f473dbcdaa0fef [INFO] [stdout] at /rustc/625451e376bb2e5283fc4741caa0a3e8a2ca4d54/src/liballoc/boxed.rs:787 [INFO] [stdout] 28: 0x564c4eb0f690 - std::sys_common::thread::start_thread::h562a7c4953cb1d31 [INFO] [stdout] at src/libstd/sys_common/thread.rs:13 [INFO] [stdout] 29: 0x564c4eb0f690 - std::sys::unix::thread::Thread::new::thread_start::h382c6ae14181d163 [INFO] [stdout] at src/libstd/sys/unix/thread.rs:79 [INFO] [stdout] 30: 0x7f6a689556db - start_thread [INFO] [stdout] 31: 0x7f6a6846688f - __clone [INFO] [stdout] 32: 0x0 - [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] failures: [INFO] [stdout] geneobject::tests::it_can_estimate_unknown_genotypes [INFO] [stdout] [INFO] [stdout] test result: FAILED. 2 passed; 1 failed; 0 ignored; 0 measured; 0 filtered out [INFO] [stdout] [INFO] [stderr] error: test failed, to rerun pass '--lib' [INFO] running `"docker" "inspect" "fa7756ab8317d1512ef01cb38cb6f3cfcf5a7b21a0e9f436d46c7e00f3d3c5ea"` [INFO] running `"docker" "rm" "-f" "fa7756ab8317d1512ef01cb38cb6f3cfcf5a7b21a0e9f436d46c7e00f3d3c5ea"` [INFO] [stdout] fa7756ab8317d1512ef01cb38cb6f3cfcf5a7b21a0e9f436d46c7e00f3d3c5ea