[INFO] cloning repository https://github.com/10XGenomics/vartrix
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/10XGenomics/vartrix" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Fvartrix", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Fvartrix'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] c3bc0fb7092123764cb9cb92d7397f2d1e2235e7
[INFO] testing 10XGenomics/vartrix against 1.47.0 for beta-1.48-1
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Fvartrix" "/workspace/builds/worker-5/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-5/source'...
[INFO] [stderr] done.
[INFO] validating manifest of git repo https://github.com/10XGenomics/vartrix on toolchain 1.47.0
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.47.0" "read-manifest" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] started tweaking git repo https://github.com/10XGenomics/vartrix
[INFO] finished tweaking git repo https://github.com/10XGenomics/vartrix
[INFO] tweaked toml for git repo https://github.com/10XGenomics/vartrix written to /workspace/builds/worker-5/source/Cargo.toml
[INFO] crate git repo https://github.com/10XGenomics/vartrix already has a lockfile, it will not be regenerated
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.47.0" "fetch" "--locked" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/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" "+1.47.0" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] eb30e88d285f79195875eb14cd0bfe98d21356f979b41f1d04da69c46d8fd259
[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" "eb30e88d285f79195875eb14cd0bfe98d21356f979b41f1d04da69c46d8fd259", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "eb30e88d285f79195875eb14cd0bfe98d21356f979b41f1d04da69c46d8fd259", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "eb30e88d285f79195875eb14cd0bfe98d21356f979b41f1d04da69c46d8fd259", kill_on_drop: false }`
[INFO] [stdout] eb30e88d285f79195875eb14cd0bfe98d21356f979b41f1d04da69c46d8fd259
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/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" "RUSTFLAGS=--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" "+1.47.0" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] fafa29da4d822cb2edb94283b34016042378793be4784fcd7996b1a3f0488684
[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" "fafa29da4d822cb2edb94283b34016042378793be4784fcd7996b1a3f0488684", kill_on_drop: false }`
[INFO] [stderr]    Compiling proc-macro2 v1.0.3
[INFO] [stderr]    Compiling syn v1.0.11
[INFO] [stderr]    Compiling pkg-config v0.3.16
[INFO] [stderr]    Compiling serde v1.0.101
[INFO] [stderr]    Compiling memchr v2.2.1
[INFO] [stderr]    Compiling quick-error v1.2.2
[INFO] [stderr]    Compiling either v1.5.3
[INFO] [stderr]    Compiling regex-syntax v0.6.12
[INFO] [stderr]    Compiling semver v0.1.20
[INFO] [stderr]    Compiling arrayvec v0.4.11
[INFO] [stderr]    Compiling getrandom v0.1.12
[INFO] [stderr]    Compiling rustc-demangle v0.1.16
[INFO] [stderr]    Compiling glob v0.3.0
[INFO] [stderr]    Compiling matrixmultiply v0.1.15
[INFO] [stderr]    Compiling ryu v1.0.0
[INFO] [stderr]    Compiling ppv-lite86 v0.2.5
[INFO] [stderr]    Compiling smallvec v0.6.10
[INFO] [stderr]    Compiling failure_derive v0.1.5
[INFO] [stderr]    Compiling feature-probe v0.1.1
[INFO] [stderr]    Compiling doc-comment v0.3.1
[INFO] [stderr]    Compiling ndarray v0.12.1
[INFO] [stderr]    Compiling ndarray v0.13.0
[INFO] [stderr]    Compiling unicode-segmentation v1.3.0
[INFO] [stderr]    Compiling rawpointer v0.1.0
[INFO] [stderr]    Compiling rawpointer v0.2.1
[INFO] [stderr]    Compiling crc32fast v1.2.0
[INFO] [stderr]    Compiling rustc-serialize v0.3.24
[INFO] [stderr]    Compiling adler32 v1.0.4
[INFO] [stderr]    Compiling approx v0.1.1
[INFO] [stderr]    Compiling ordermap v0.3.5
[INFO] [stderr]    Compiling fixedbitset v0.1.9
[INFO] [stderr]    Compiling itoa v0.4.4
[INFO] [stderr]    Compiling unicode-width v0.1.6
[INFO] [stderr]    Compiling bio v0.30.0
[INFO] [stderr]    Compiling custom_derive v0.1.7
[INFO] [stderr]    Compiling linear-map v1.2.0
[INFO] [stderr]    Compiling termcolor v0.3.6
[INFO] [stderr]    Compiling strum v0.16.0
[INFO] [stderr]    Compiling bytecount v0.6.0
[INFO] [stderr]    Compiling ieee754 v0.2.6
[INFO] [stderr]    Compiling thread_local v0.3.6
[INFO] [stderr]    Compiling num-integer v0.1.41
[INFO] [stderr]    Compiling num-complex v0.2.3
[INFO] [stderr]    Compiling fs-utils v1.1.1
[INFO] [stderr]    Compiling itertools v0.8.0
[INFO] [stderr]    Compiling itertools v0.7.11
[INFO] [stderr]    Compiling itertools v0.6.5
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]    Compiling unicode-normalization v0.1.8
[INFO] [stderr]    Compiling matrixmultiply v0.2.3
[INFO] [stderr]    Compiling bv v0.11.0
[INFO] [stderr]    Compiling miniz_oxide v0.3.2
[INFO] [stderr]    Compiling textwrap v0.11.0
[INFO] [stderr]    Compiling c2-chacha v0.2.2
[INFO] [stderr]    Compiling heck v0.3.1
[INFO] [stderr]    Compiling petgraph v0.4.13
[INFO] [stderr]    Compiling jobserver v0.1.21
[INFO] [stderr]    Compiling time v0.1.42
[INFO] [stderr]    Compiling dirs v1.0.5
[INFO] [stderr]    Compiling atty v0.2.13
[INFO] [stderr]    Compiling terminal_size v0.1.8
[INFO] [stderr]    Compiling regex-automata v0.1.8
[INFO] [stderr]    Compiling fxhash v0.2.1
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]    Compiling uuid v0.6.5
[INFO] [stderr]    Compiling tempdir v0.3.7
[INFO] [stderr]    Compiling flate2 v1.0.11
[INFO] [stderr]    Compiling cc v1.0.45
[INFO] [stderr]    Compiling rand_core v0.5.1
[INFO] [stderr]    Compiling num-traits v0.1.43
[INFO] [stderr]    Compiling approx v0.3.2
[INFO] [stderr]    Compiling itertools-num v0.1.3
[INFO] [stderr]    Compiling ordered-float v1.0.2
[INFO] [stderr]    Compiling term v0.5.2
[INFO] [stderr]    Compiling aho-corasick v0.7.6
[INFO] [stderr]    Compiling csv-core v0.1.6
[INFO] [stderr]    Compiling quote v1.0.2
[INFO] [stderr]    Compiling idna v0.2.0
[INFO] [stderr]    Compiling rand_chacha v0.2.1
[INFO] [stderr]    Compiling statrs v0.11.0
[INFO] [stderr]    Compiling synstructure v0.10.2
[INFO] [stderr]    Compiling snafu-derive v0.5.0
[INFO] [stderr]    Compiling chrono v0.4.9
[INFO] [stderr]    Compiling rand v0.7.2
[INFO] [stderr]    Compiling num-complex v0.1.43
[INFO] [stderr]    Compiling openssl-src v111.10.2+1.1.1g
[INFO] [stderr]    Compiling crossbeam-epoch v0.7.2
[INFO] [stderr]    Compiling url v2.1.1
[INFO] [stderr]    Compiling regex v1.3.1
[INFO] [stderr]    Compiling alga v0.5.4
[INFO] [stderr]    Compiling crossbeam-deque v0.7.1
[INFO] [stderr]    Compiling simplelog v0.5.3
[INFO] [stderr]    Compiling tempfile v3.1.0
[INFO] [stderr]    Compiling openssl-sys v0.9.54
[INFO] [stderr]    Compiling libz-sys v1.1.2
[INFO] [stderr]    Compiling backtrace-sys v0.1.31
[INFO] [stderr]    Compiling curl-sys v0.4.36+curl-7.71.1
[INFO] [stderr]    Compiling bzip2-sys v0.1.9+1.0.8
[INFO] [stderr]    Compiling lzma-sys v0.1.16
[INFO] [stderr]    Compiling hts-sys v1.10.3
[INFO] [stderr]    Compiling rayon-core v1.6.0
[INFO] [stderr]    Compiling os_type v2.2.0
[INFO] [stderr]    Compiling rayon v1.2.0
[INFO] [stderr]    Compiling backtrace v0.3.37
[INFO] [stderr]    Compiling snafu v0.5.0
[INFO] [stderr]    Compiling failure v0.1.5
[INFO] [stderr]    Compiling serde_derive v1.0.101
[INFO] [stderr]    Compiling thiserror-impl v1.0.20
[INFO] [stderr]    Compiling derive-new v0.5.8
[INFO] [stderr]    Compiling strum_macros v0.16.0
[INFO] [stderr]    Compiling getset v0.0.9
[INFO] [stderr]    Compiling thiserror v1.0.20
[INFO] [stderr]    Compiling vec_map v0.8.1
[INFO] [stderr]    Compiling bstr v0.2.8
[INFO] [stderr]    Compiling bio-types v0.7.0
[INFO] [stderr]    Compiling bio-types v0.5.1
[INFO] [stderr]    Compiling toml v0.4.10
[INFO] [stderr]    Compiling multimap v0.6.0
[INFO] [stderr]    Compiling sprs v0.6.5
[INFO] [stderr]    Compiling clap v2.33.0
[INFO] [stderr]    Compiling csv v1.1.1
[INFO] [stderr]    Compiling human-panic v1.0.1
[INFO] [stderr]    Compiling rust-htslib v0.32.0
[INFO] [stderr]    Compiling vartrix v1.1.14 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished dev [unoptimized + debuginfo] target(s) in 3m 10s
[INFO] running `Command { std: "docker" "inspect" "fafa29da4d822cb2edb94283b34016042378793be4784fcd7996b1a3f0488684", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "fafa29da4d822cb2edb94283b34016042378793be4784fcd7996b1a3f0488684", kill_on_drop: false }`
[INFO] [stdout] fafa29da4d822cb2edb94283b34016042378793be4784fcd7996b1a3f0488684
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/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" "RUSTFLAGS=--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" "+1.47.0" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] b4091cf6eebe048ba3ae3266e4fa0f1f4b18b718364a88b6c4176bff6282f354
[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" "b4091cf6eebe048ba3ae3266e4fa0f1f4b18b718364a88b6c4176bff6282f354", kill_on_drop: false }`
[INFO] [stderr]    Compiling vartrix v1.1.14 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished test [unoptimized + debuginfo] target(s) in 6.08s
[INFO] running `Command { std: "docker" "inspect" "b4091cf6eebe048ba3ae3266e4fa0f1f4b18b718364a88b6c4176bff6282f354", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "b4091cf6eebe048ba3ae3266e4fa0f1f4b18b718364a88b6c4176bff6282f354", kill_on_drop: false }`
[INFO] [stdout] b4091cf6eebe048ba3ae3266e4fa0f1f4b18b718364a88b6c4176bff6282f354
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/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" "RUSTFLAGS=--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" "+1.47.0" "test" "--frozen", kill_on_drop: false }`
[INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap.
[INFO] [stdout] ead351c97eba7ef80b385b57ae0a6f75a752fa0e3557cb61cd388f7afc9c2a52
[INFO] running `Command { std: "docker" "start" "-a" "ead351c97eba7ef80b385b57ae0a6f75a752fa0e3557cb61cd388f7afc9c2a52", kill_on_drop: false }`
[INFO] [stderr]     Finished test [unoptimized + debuginfo] target(s) in 0.16s
[INFO] [stderr]      Running /opt/rustwide/target/debug/deps/vartrix-1de339464be9a7ed
[INFO] [stdout] 
[INFO] [stdout] running 7 tests
[INFO] [stdout] test tests::test_coverage_matrices_umi_gzipped_bcs ... ok
[INFO] [stdout] test tests::test_consensus_matrix ... ok
[INFO] [stdout] test tests::test_coverage_matrices_umi ... ok
[INFO] [stdout] test tests::test_coverage_matrices ... ok
[INFO] [stdout] test tests::test_frac_matrix ... ok
[INFO] [stderr] 21:37:10 [ERROR] The resulting matrix has a sum of 0. Did you use the --umi flag on data without UMIs?
[INFO] [stdout] test tests::test_coverage_matrices_umi_dna ... ok
[INFO] [stdout] test tests::test_coverage_matrices_dna ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 7 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out
[INFO] [stdout] 
[INFO] running `Command { std: "docker" "inspect" "ead351c97eba7ef80b385b57ae0a6f75a752fa0e3557cb61cd388f7afc9c2a52", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "ead351c97eba7ef80b385b57ae0a6f75a752fa0e3557cb61cd388f7afc9c2a52", kill_on_drop: false }`
[INFO] [stdout] ead351c97eba7ef80b385b57ae0a6f75a752fa0e3557cb61cd388f7afc9c2a52