[INFO] cloning repository https://github.com/10XGenomics/bamtofastq [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/10XGenomics/bamtofastq" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Fbamtofastq", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Fbamtofastq'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 470c380ff0e872f0774e8655b4c7260dbabcc90d [INFO] testing 10XGenomics/bamtofastq against try#8262275854dc0e5381c9d42d56257d94932c5a87 for pr-90799 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2F10XGenomics%2Fbamtofastq" "/workspace/builds/worker-13/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-13/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/10XGenomics/bamtofastq on toolchain 8262275854dc0e5381c9d42d56257d94932c5a87 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+8262275854dc0e5381c9d42d56257d94932c5a87" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] removed /workspace/builds/worker-13/source/.cargo/config.toml [INFO] started tweaking git repo https://github.com/10XGenomics/bamtofastq [INFO] finished tweaking git repo https://github.com/10XGenomics/bamtofastq [INFO] tweaked toml for git repo https://github.com/10XGenomics/bamtofastq written to /workspace/builds/worker-13/source/Cargo.toml [INFO] crate git repo https://github.com/10XGenomics/bamtofastq already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+8262275854dc0e5381c9d42d56257d94932c5a87" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded lz4 v1.23.2 [INFO] [stderr] Downloaded lz4-sys v1.9.2 [INFO] [stderr] Downloaded fs-utils v1.1.4 [INFO] [stderr] Downloaded min-max-heap v1.3.0 [INFO] [stderr] Downloaded rust-htslib v0.38.2 [INFO] [stderr] Downloaded libdeflate-sys v0.5.0 [INFO] [stderr] Downloaded bio-types v0.12.0 [INFO] [stderr] Downloaded shardio v0.8.2 [INFO] [stderr] Downloaded docopt v1.1.1 [INFO] [stderr] Downloaded gimli v0.26.0 [INFO] [stderr] Downloaded lzma-sys v0.1.17 [INFO] [stderr] Downloaded curl-sys v0.4.49+curl-7.79.1 [INFO] [stderr] Downloaded hts-sys v2.0.2 [INFO] [stderr] Downloaded openssl-src v111.16.0+1.1.1l [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/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" "ghcr.io/rust-lang/crates-build-env/linux@sha256:5736fa189c1c60b01babf4b8b698fe57b6ecc41933a7ff2e0b8d7a221459412b" "/opt/rustwide/cargo-home/bin/cargo" "+8262275854dc0e5381c9d42d56257d94932c5a87" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] bdff5d564973f880f6385c59a527599fac72ab46f7840f3c2dbe80fcf5017f4b [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" "bdff5d564973f880f6385c59a527599fac72ab46f7840f3c2dbe80fcf5017f4b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "bdff5d564973f880f6385c59a527599fac72ab46f7840f3c2dbe80fcf5017f4b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "bdff5d564973f880f6385c59a527599fac72ab46f7840f3c2dbe80fcf5017f4b", kill_on_drop: false }` [INFO] [stdout] bdff5d564973f880f6385c59a527599fac72ab46f7840f3c2dbe80fcf5017f4b [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/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=forbid" "-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" "ghcr.io/rust-lang/crates-build-env/linux@sha256:5736fa189c1c60b01babf4b8b698fe57b6ecc41933a7ff2e0b8d7a221459412b" "/opt/rustwide/cargo-home/bin/cargo" "+8262275854dc0e5381c9d42d56257d94932c5a87" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] af10b4fe93e9e90fd0393a1022f03a645e72e3e759fbcaa46f430b4d28264c2f [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" "af10b4fe93e9e90fd0393a1022f03a645e72e3e759fbcaa46f430b4d28264c2f", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.103 [INFO] [stderr] Compiling proc-macro2 v1.0.29 [INFO] [stderr] Compiling unicode-xid v0.2.2 [INFO] [stderr] Compiling syn v1.0.80 [INFO] [stderr] Compiling pkg-config v0.3.20 [INFO] [stderr] Compiling autocfg v1.0.1 [INFO] [stderr] Compiling tinyvec_macros v0.1.0 [INFO] [stderr] Compiling matches v0.1.9 [INFO] [stderr] Compiling unicode-segmentation v1.8.0 [INFO] [stderr] Compiling adler v1.0.2 [INFO] [stderr] Compiling regex-syntax v0.6.25 [INFO] [stderr] Compiling gimli v0.26.0 [INFO] [stderr] Compiling crossbeam-utils v0.8.5 [INFO] [stderr] Compiling percent-encoding v2.1.0 [INFO] [stderr] Compiling log v0.4.14 [INFO] [stderr] Compiling ppv-lite86 v0.2.10 [INFO] [stderr] Compiling unicode-bidi v0.3.7 [INFO] [stderr] Compiling rustc-demangle v0.1.21 [INFO] [stderr] Compiling crc32fast v1.2.1 [INFO] [stderr] Compiling anyhow v1.0.51 [INFO] [stderr] Compiling ryu v1.0.5 [INFO] [stderr] Compiling byteorder v1.4.3 [INFO] [stderr] Compiling regex-automata v0.1.10 [INFO] [stderr] Compiling itoa v0.4.8 [INFO] [stderr] Compiling ieee754 v0.2.6 [INFO] [stderr] Compiling linear-map v1.2.0 [INFO] [stderr] Compiling strsim v0.10.0 [INFO] [stderr] Compiling either v1.6.1 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling remove_dir_all v0.5.3 [INFO] [stderr] Compiling min-max-heap v1.3.0 [INFO] [stderr] Compiling memchr v2.4.1 [INFO] [stderr] Compiling serde v1.0.130 [INFO] [stderr] Compiling fs-utils v1.1.4 [INFO] [stderr] Compiling tinyvec v1.5.0 [INFO] [stderr] Compiling form_urlencoded v1.0.1 [INFO] [stderr] Compiling heck v0.3.3 [INFO] [stderr] Compiling miniz_oxide v0.4.4 [INFO] [stderr] Compiling itertools v0.10.1 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling crossbeam-channel v0.5.1 [INFO] [stderr] Compiling aho-corasick v0.7.18 [INFO] [stderr] Compiling object v0.27.1 [INFO] [stderr] Compiling csv-core v0.1.10 [INFO] [stderr] Compiling jobserver v0.1.24 [INFO] [stderr] Compiling quote v1.0.10 [INFO] [stderr] Compiling unicode-normalization v0.1.19 [INFO] [stderr] Compiling getrandom v0.2.3 [INFO] [stderr] Compiling cc v1.0.71 [INFO] [stderr] Compiling regex v1.5.4 [INFO] [stderr] Compiling rand_core v0.6.3 [INFO] [stderr] Compiling rand_chacha v0.3.1 [INFO] [stderr] Compiling cmake v0.1.45 [INFO] [stderr] Compiling addr2line v0.17.0 [INFO] [stderr] Compiling rand v0.8.4 [INFO] [stderr] Compiling idna v0.2.3 [INFO] [stderr] Compiling libz-sys v1.1.3 [INFO] [stderr] Compiling libdeflate-sys v0.5.0 [INFO] [stderr] Compiling bzip2-sys v0.1.11+1.0.8 [INFO] [stderr] Compiling lzma-sys v0.1.17 [INFO] [stderr] Compiling lz4-sys v1.9.2 [INFO] [stderr] Compiling backtrace v0.3.63 [INFO] [stderr] Compiling hts-sys v2.0.2 [INFO] [stderr] Compiling url v2.2.2 [INFO] [stderr] Compiling tempfile v3.2.0 [INFO] [stderr] Compiling serde_derive v1.0.130 [INFO] [stderr] Compiling thiserror-impl v1.0.29 [INFO] [stderr] Compiling strum_macros v0.20.1 [INFO] [stderr] Compiling derive-new v0.5.9 [INFO] [stderr] Compiling thiserror v1.0.29 [INFO] [stderr] Compiling bio-types v0.12.0 [INFO] [stderr] Compiling flate2 v1.0.22 [INFO] [stderr] Compiling lz4 v1.23.2 [INFO] [stderr] Compiling bincode v1.3.3 [INFO] [stderr] Compiling bstr v0.2.17 [INFO] [stderr] Compiling serde_bytes v0.11.5 [INFO] [stderr] Compiling docopt v1.1.1 [INFO] [stderr] Compiling shardio v0.8.2 [INFO] [stderr] Compiling csv v1.1.6 [INFO] [stderr] Compiling rust-htslib v0.38.2 [INFO] [stderr] Compiling bamtofastq v1.4.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished dev [optimized + debuginfo] target(s) in 6m 01s [INFO] running `Command { std: "docker" "inspect" "af10b4fe93e9e90fd0393a1022f03a645e72e3e759fbcaa46f430b4d28264c2f", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "af10b4fe93e9e90fd0393a1022f03a645e72e3e759fbcaa46f430b4d28264c2f", kill_on_drop: false }` [INFO] [stdout] af10b4fe93e9e90fd0393a1022f03a645e72e3e759fbcaa46f430b4d28264c2f [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/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=forbid" "-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" "ghcr.io/rust-lang/crates-build-env/linux@sha256:5736fa189c1c60b01babf4b8b698fe57b6ecc41933a7ff2e0b8d7a221459412b" "/opt/rustwide/cargo-home/bin/cargo" "+8262275854dc0e5381c9d42d56257d94932c5a87" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 651c81abeee5f9f15d91bfeb6f50fbc7681bc689e2abdf72a6e57aae11dff648 [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" "651c81abeee5f9f15d91bfeb6f50fbc7681bc689e2abdf72a6e57aae11dff648", kill_on_drop: false }` [INFO] [stderr] Compiling bamtofastq v1.4.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished test [optimized + debuginfo] target(s) in 34.31s [INFO] running `Command { std: "docker" "inspect" "651c81abeee5f9f15d91bfeb6f50fbc7681bc689e2abdf72a6e57aae11dff648", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "651c81abeee5f9f15d91bfeb6f50fbc7681bc689e2abdf72a6e57aae11dff648", kill_on_drop: false }` [INFO] [stdout] 651c81abeee5f9f15d91bfeb6f50fbc7681bc689e2abdf72a6e57aae11dff648 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/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=forbid" "-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" "ghcr.io/rust-lang/crates-build-env/linux@sha256:5736fa189c1c60b01babf4b8b698fe57b6ecc41933a7ff2e0b8d7a221459412b" "/opt/rustwide/cargo-home/bin/cargo" "+8262275854dc0e5381c9d42d56257d94932c5a87" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] 6bfdfc92185431090e07b6104da1fb48941f51f4c1a2ac9c9a0ecda788532922 [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" "6bfdfc92185431090e07b6104da1fb48941f51f4c1a2ac9c9a0ecda788532922", kill_on_drop: false }` [INFO] [stderr] Finished test [optimized + debuginfo] target(s) in 0.09s [INFO] [stderr] Running unittests (/opt/rustwide/target/debug/deps/bamtofastq-1d3d2b97cece9cb7) [INFO] [stdout] [INFO] [stdout] running 7 tests [INFO] [stdout] test tests::bad_bam ... ok [INFO] [stdout] test tests::wrong_header ... ok [INFO] [stdout] test tests::unpaired_record ... ok [INFO] [stdout] test tests::test_lr21 ... ok [INFO] [stdout] test tests::test_cr12 ... ok [INFO] [stdout] test tests::test_lr20 ... ok [INFO] [stdout] test tests::test_cr12_v1 ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 7 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.81s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "6bfdfc92185431090e07b6104da1fb48941f51f4c1a2ac9c9a0ecda788532922", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "6bfdfc92185431090e07b6104da1fb48941f51f4c1a2ac9c9a0ecda788532922", kill_on_drop: false }` [INFO] [stdout] 6bfdfc92185431090e07b6104da1fb48941f51f4c1a2ac9c9a0ecda788532922