[INFO] cloning repository https://github.com/swemeshy/counts_to_csv
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/swemeshy/counts_to_csv" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fswemeshy%2Fcounts_to_csv", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fswemeshy%2Fcounts_to_csv'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 416d6b6a25b07251ddbe10a79b9b16a97b0d73c7
[INFO] documenting swemeshy/counts_to_csv against 1.54.0 for beta-1.55-rustdoc-1
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fswemeshy%2Fcounts_to_csv" "/workspace/builds/worker-3/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-3/source'...
[INFO] [stderr] done.
[INFO] validating manifest of git repo https://github.com/swemeshy/counts_to_csv on toolchain 1.54.0
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.54.0" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking git repo https://github.com/swemeshy/counts_to_csv
[INFO] finished tweaking git repo https://github.com/swemeshy/counts_to_csv
[INFO] tweaked toml for git repo https://github.com/swemeshy/counts_to_csv written to /workspace/builds/worker-3/source/Cargo.toml
[INFO] crate git repo https://github.com/swemeshy/counts_to_csv already has a lockfile, it will not be regenerated
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.54.0" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+1.54.0" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 6a981578cd817f2a4240cc8b8301736f65797e179e23acf24738e835ed1cbc34
[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" "6a981578cd817f2a4240cc8b8301736f65797e179e23acf24738e835ed1cbc34", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "6a981578cd817f2a4240cc8b8301736f65797e179e23acf24738e835ed1cbc34", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "6a981578cd817f2a4240cc8b8301736f65797e179e23acf24738e835ed1cbc34", kill_on_drop: false }`
[INFO] [stdout] 6a981578cd817f2a4240cc8b8301736f65797e179e23acf24738e835ed1cbc34
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/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" "RUSTDOCFLAGS=--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" "ghcr.io/rust-lang/crates-build-env/linux@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+1.54.0" "doc" "--frozen" "--no-deps" "--document-private-items" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] d7b3dd11c87fef5c2d5c427584dec9f4a1f858384584743d0827ef4650f5d1f4
[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" "d7b3dd11c87fef5c2d5c427584dec9f4a1f858384584743d0827ef4650f5d1f4", kill_on_drop: false }`
[INFO] [stderr]    Compiling libc v0.2.88
[INFO] [stderr]    Compiling syn v1.0.67
[INFO] [stderr]    Compiling hdf5-types v0.7.1 (https://github.com/aldanor/hdf5-rust.git?rev=24beeaa914a05c67adc78f0c161925fd4627d407#24beeaa9)
[INFO] [stderr]    Compiling hdf5 v0.7.1 (https://github.com/aldanor/hdf5-rust.git?rev=24beeaa914a05c67adc78f0c161925fd4627d407#24beeaa9)
[INFO] [stderr]     Checking ascii v1.0.0
[INFO] [stderr]    Compiling num-complex v0.2.4
[INFO] [stderr]    Compiling regex v1.4.4
[INFO] [stderr]     Checking num-integer v0.1.44
[INFO] [stderr]     Checking approx v0.3.2
[INFO] [stderr]     Checking ndarray v0.15.3
[INFO] [stderr]     Checking ndarray v0.13.1
[INFO] [stderr]     Checking alga v0.9.3
[INFO] [stderr]     Checking num_cpus v1.13.0
[INFO] [stderr]     Checking parking_lot_core v0.8.3
[INFO] [stderr]     Checking atty v0.2.14
[INFO] [stderr]     Checking time v0.1.44
[INFO] [stderr]     Checking terminal_size v0.1.16
[INFO] [stderr]     Checking console v0.14.1
[INFO] [stderr]     Checking colored v1.9.3
[INFO] [stderr]     Checking rayon-core v1.9.0
[INFO] [stderr]     Checking chrono v0.4.19
[INFO] [stderr]     Checking parking_lot v0.11.1
[INFO] [stderr]     Checking indicatif v0.15.0
[INFO] [stderr]     Checking rayon v1.5.0
[INFO] [stderr]     Checking simple_logger v1.11.0
[INFO] [stderr]    Compiling hdf5-sys v0.7.1 (https://github.com/aldanor/hdf5-rust.git?rev=24beeaa914a05c67adc78f0c161925fd4627d407#24beeaa9)
[INFO] [stderr]    Compiling pyo3-macros-backend v0.13.2
[INFO] [stderr]    Compiling proc-macro-error v1.0.4
[INFO] [stderr] error: failed to run custom build command for `hdf5-sys v0.7.1 (https://github.com/aldanor/hdf5-rust.git?rev=24beeaa914a05c67adc78f0c161925fd4627d407#24beeaa9)`
[INFO] [stderr] 
[INFO] [stderr] Caused by:
[INFO] [stderr]   process didn't exit successfully: `/opt/rustwide/target/debug/build/hdf5-sys-d4f6f11e7c7889c4/build-script-build` (exit status: 101)
[INFO] [stderr]   --- stdout
[INFO] [stderr]   Attempting to find HDF5 via pkg-config...
[INFO] [stderr]   cargo:rerun-if-env-changed=HDF5_NO_PKG_CONFIG
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG
[INFO] [stderr]   cargo:rerun-if-env-changed=HDF5_STATIC
[INFO] [stderr]   cargo:rerun-if-env-changed=HDF5_DYNAMIC
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG_ALL_STATIC
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG_ALL_DYNAMIC
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG_PATH_x86_64-unknown-linux-gnu
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG_PATH_x86_64_unknown_linux_gnu
[INFO] [stderr]   cargo:rerun-if-env-changed=HOST_PKG_CONFIG_PATH
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG_PATH
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG_LIBDIR_x86_64-unknown-linux-gnu
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG_LIBDIR_x86_64_unknown_linux_gnu
[INFO] [stderr]   cargo:rerun-if-env-changed=HOST_PKG_CONFIG_LIBDIR
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG_LIBDIR
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG_SYSROOT_DIR_x86_64-unknown-linux-gnu
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG_SYSROOT_DIR_x86_64_unknown_linux_gnu
[INFO] [stderr]   cargo:rerun-if-env-changed=HOST_PKG_CONFIG_SYSROOT_DIR
[INFO] [stderr]   cargo:rerun-if-env-changed=PKG_CONFIG_SYSROOT_DIR
[INFO] [stderr] 
[INFO] [stderr]   --- stderr
[INFO] [stderr]   thread 'main' panicked at 'Unable to locate HDF5 root directory and/or headers.', /opt/rustwide/cargo-home/git/checkouts/hdf5-rust-c1072d7a2617f7d8/24beeaa/hdf5-sys/build.rs:547:13
[INFO] [stderr]   stack backtrace:
[INFO] [stderr]      0:     0x556865a82d40 - std::backtrace_rs::backtrace::libunwind::trace::h34055254b57d8e79
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/../../backtrace/src/backtrace/libunwind.rs:90:5
[INFO] [stderr]      1:     0x556865a82d40 - std::backtrace_rs::backtrace::trace_unsynchronized::h8f1e3fbd9afff6ec
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/../../backtrace/src/backtrace/mod.rs:66:5
[INFO] [stderr]      2:     0x556865a82d40 - std::sys_common::backtrace::_print_fmt::h3a99a796b770c360
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/sys_common/backtrace.rs:67:5
[INFO] [stderr]      3:     0x556865a82d40 - <std::sys_common::backtrace::_print::DisplayBacktrace as core::fmt::Display>::fmt::h32d1f94a80615d18
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/sys_common/backtrace.rs:46:22
[INFO] [stderr]      4:     0x556865aa12cc - core::fmt::write::h306731c068f7162c
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/core/src/fmt/mod.rs:1110:17
[INFO] [stderr]      5:     0x556865a802a5 - std::io::Write::write_fmt::hd2fa90334eee2a21
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/io/mod.rs:1588:15
[INFO] [stderr]      6:     0x556865a84dab - std::sys_common::backtrace::_print::h5abaa2601a852287
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/sys_common/backtrace.rs:49:5
[INFO] [stderr]      7:     0x556865a84dab - std::sys_common::backtrace::print::h8d81445442bb638f
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/sys_common/backtrace.rs:36:9
[INFO] [stderr]      8:     0x556865a84dab - std::panicking::default_hook::{{closure}}::hcfe804496a9fa747
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/panicking.rs:208:50
[INFO] [stderr]      9:     0x556865a84881 - std::panicking::default_hook::hbea8e3ccf2ba8901
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/panicking.rs:225:9
[INFO] [stderr]     10:     0x556865a85474 - std::panicking::rust_panic_with_hook::h7ee9e1a2d0f8975a
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/panicking.rs:622:17
[INFO] [stderr]     11:     0x5568659d0433 - std::panicking::begin_panic::{{closure}}::h983437847536bc9f
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/panicking.rs:542:9
[INFO] [stderr]     12:     0x5568659ea3d9 - std::sys_common::backtrace::__rust_end_short_backtrace::h27cc55ee3adceb15
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/sys_common/backtrace.rs:141:18
[INFO] [stderr]     13:     0x5568659d0369 - std::panicking::begin_panic::ha0e81e39e7456ccb
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/panicking.rs:541:12
[INFO] [stderr]     14:     0x556865884d67 - build_script_build::LibrarySearcher::try_locate_hdf5_library::ha3c7e5be05567bb6
[INFO] [stderr]                                  at /opt/rustwide/cargo-home/git/checkouts/hdf5-rust-c1072d7a2617f7d8/24beeaa/hdf5-sys/build.rs:547:13
[INFO] [stderr]     15:     0x55686588659b - build_script_build::main::h11788be467e0b03b
[INFO] [stderr]                                  at /opt/rustwide/cargo-home/git/checkouts/hdf5-rust-c1072d7a2617f7d8/24beeaa/hdf5-sys/build.rs:645:9
[INFO] [stderr]     16:     0x556865889deb - core::ops::function::FnOnce::call_once::h6407b14380aa2844
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/core/src/ops/function.rs:227:5
[INFO] [stderr]     17:     0x5568658933de - std::sys_common::backtrace::__rust_begin_short_backtrace::h8478baa3855a9fbf
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/sys_common/backtrace.rs:125:18
[INFO] [stderr]     18:     0x5568658920e1 - std::rt::lang_start::{{closure}}::h483c7660fd2cd501
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/rt.rs:49:18
[INFO] [stderr]     19:     0x556865a85979 - core::ops::function::impls::<impl core::ops::function::FnOnce<A> for &F>::call_once::h2aabc384aab89b7b
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/core/src/ops/function.rs:259:13
[INFO] [stderr]     20:     0x556865a85979 - std::panicking::try::do_call::hc5fcacb7a85fc7b1
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/panicking.rs:401:40
[INFO] [stderr]     21:     0x556865a85979 - std::panicking::try::hb5d9603af3abbe3a
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/panicking.rs:365:19
[INFO] [stderr]     22:     0x556865a85979 - std::panic::catch_unwind::h98fe6ac3925e64b4
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/panic.rs:434:14
[INFO] [stderr]     23:     0x556865a85979 - std::rt::lang_start_internal::h22ac7383c516f93e
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/rt.rs:34:21
[INFO] [stderr]     24:     0x5568658920c0 - std::rt::lang_start::hcb5132017833d09c
[INFO] [stderr]                                  at /rustc/a178d0322ce20e33eac124758e837cbd80a6f633/library/std/src/rt.rs:48:5
[INFO] [stderr]     25:     0x556865887a8c - main
[INFO] [stderr]     26:     0x7f24878f50b3 - __libc_start_main
[INFO] [stderr]     27:     0x55686587ff0e - _start
[INFO] [stderr]     28:                0x0 - <unknown>
[INFO] [stderr] warning: build failed, waiting for other jobs to finish...
[INFO] [stderr] error: build failed
[INFO] running `Command { std: "docker" "inspect" "d7b3dd11c87fef5c2d5c427584dec9f4a1f858384584743d0827ef4650f5d1f4", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "d7b3dd11c87fef5c2d5c427584dec9f4a1f858384584743d0827ef4650f5d1f4", kill_on_drop: false }`
[INFO] [stdout] d7b3dd11c87fef5c2d5c427584dec9f4a1f858384584743d0827ef4650f5d1f4
