[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] fcac3c11d1d1d65496d2c996355ef02f87ebef7b [INFO] checking swemeshy/counts_to_csv against master#4fa76a4a7742bb9c1febe33019f5a9e7e4839a65 for pr-83744 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fswemeshy%2Fcounts_to_csv" "/workspace/builds/worker-9/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-9/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/swemeshy/counts_to_csv on toolchain 4fa76a4a7742bb9c1febe33019f5a9e7e4839a65 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+4fa76a4a7742bb9c1febe33019f5a9e7e4839a65" "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-9/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" "+4fa76a4a7742bb9c1febe33019f5a9e7e4839a65" "fetch" "--locked" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-9/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-9/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@sha256:20528e8c29e4536546f0102ce88568b16ea7538393a33fcca951030f7af10457" "/opt/rustwide/cargo-home/bin/cargo" "+4fa76a4a7742bb9c1febe33019f5a9e7e4839a65" "metadata" "--no-deps" "--format-version=1", 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] 93bd9a861ab42c71ed1d0005d0ea52d9c6d185dc88a8eab772d914a11c36a530 [INFO] running `Command { std: "docker" "start" "-a" "93bd9a861ab42c71ed1d0005d0ea52d9c6d185dc88a8eab772d914a11c36a530", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "93bd9a861ab42c71ed1d0005d0ea52d9c6d185dc88a8eab772d914a11c36a530", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "93bd9a861ab42c71ed1d0005d0ea52d9c6d185dc88a8eab772d914a11c36a530", kill_on_drop: false }` [INFO] [stdout] 93bd9a861ab42c71ed1d0005d0ea52d9c6d185dc88a8eab772d914a11c36a530 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-9/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-9/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@sha256:20528e8c29e4536546f0102ce88568b16ea7538393a33fcca951030f7af10457" "/opt/rustwide/cargo-home/bin/cargo" "+4fa76a4a7742bb9c1febe33019f5a9e7e4839a65" "check" "--frozen" "--all" "--all-targets" "--message-format=json", 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] a160c8834138025d1854affd9709d41e34d2de40fd5e4ff377519d4b074b134c [INFO] running `Command { std: "docker" "start" "-a" "a160c8834138025d1854affd9709d41e34d2de40fd5e4ff377519d4b074b134c", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.88 [INFO] [stderr] Compiling libm v0.2.1 [INFO] [stderr] Checking cfg-if v1.0.0 [INFO] [stderr] Compiling syn v1.0.63 [INFO] [stderr] Checking scopeguard v1.1.0 [INFO] [stderr] Compiling version_check v0.9.3 [INFO] [stderr] Checking rawpointer v0.2.1 [INFO] [stderr] Compiling pkg-config v0.3.19 [INFO] [stderr] Compiling bitflags v1.2.1 [INFO] [stderr] Compiling ryu v1.0.5 [INFO] [stderr] Compiling ndarray v0.14.0 [INFO] [stderr] Compiling log v0.4.14 [INFO] [stderr] Compiling hdf5 v0.7.1 [INFO] [stderr] Compiling anyhow v1.0.38 [INFO] [stderr] Checking number_prefix v0.3.0 [INFO] [stderr] Checking vec_map v0.8.2 [INFO] [stderr] Compiling num-traits v0.2.14 [INFO] [stderr] Compiling num-integer v0.1.44 [INFO] [stderr] Compiling crossbeam-utils v0.8.3 [INFO] [stderr] Compiling memoffset v0.6.1 [INFO] [stderr] Compiling num-complex v0.2.4 [INFO] [stderr] Compiling rayon v1.5.0 [INFO] [stderr] Compiling indexmap v1.6.2 [INFO] [stderr] Checking textwrap v0.12.1 [INFO] [stderr] Compiling libloading v0.6.7 [INFO] [stderr] Checking instant v0.1.9 [INFO] [stderr] Checking lock_api v0.4.2 [INFO] [stderr] Checking matrixmultiply v0.2.4 [INFO] [stderr] Compiling memchr v2.3.4 [INFO] [stderr] Checking csv-core v0.1.10 [INFO] [stderr] Checking regex v1.4.4 [INFO] [stderr] Compiling proc-macro-error-attr v1.0.4 [INFO] [stderr] Compiling proc-macro-error v1.0.4 [INFO] [stderr] Compiling aho-corasick v0.7.15 [INFO] [stderr] Checking crossbeam-epoch v0.9.3 [INFO] [stderr] Checking crossbeam-channel v0.5.0 [INFO] [stderr] Checking crossbeam-deque v0.8.0 [INFO] [stderr] Checking num_cpus v1.13.0 [INFO] [stderr] Checking atty v0.2.14 [INFO] [stderr] Checking terminal_size v0.1.16 [INFO] [stderr] Checking parking_lot_core v0.8.3 [INFO] [stderr] Checking time v0.1.44 [INFO] [stderr] Checking hdf5-types v0.7.1 [INFO] [stderr] Checking colored v1.9.3 [INFO] [stderr] Checking rayon-core v1.9.0 [INFO] [stderr] Checking parking_lot v0.11.1 [INFO] [stderr] Checking console v0.14.1 [INFO] [stderr] Checking num-complex v0.3.1 [INFO] [stderr] Checking approx v0.3.2 [INFO] [stderr] Checking indicatif v0.15.0 [INFO] [stderr] Checking chrono v0.4.19 [INFO] [stderr] Checking ndarray v0.13.1 [INFO] [stderr] Checking alga v0.9.3 [INFO] [stderr] Checking simple_logger v1.11.0 [INFO] [stderr] Compiling hdf5-sys v0.7.1 [INFO] [stderr] Checking sprs v0.9.3 [INFO] [stderr] error: failed to run custom build command for `hdf5-sys v0.7.1` [INFO] [stderr] [INFO] [stderr] Caused by: [INFO] [stderr] process didn't exit successfully: `/opt/rustwide/target/debug/build/hdf5-sys-18bbfbf014f6c69c/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/registry/src/github.com-1ecc6299db9ec823/hdf5-sys-0.7.1/build.rs:549:13 [INFO] [stderr] stack backtrace: [INFO] [stderr] 0: 0x557c742c08a0 - std::backtrace_rs::backtrace::libunwind::trace::hec7eaac9435d3512 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/../../backtrace/src/backtrace/libunwind.rs:90:5 [INFO] [stderr] 1: 0x557c742c08a0 - std::backtrace_rs::backtrace::trace_unsynchronized::h42791b8fa12b7daa [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/../../backtrace/src/backtrace/mod.rs:66:5 [INFO] [stderr] 2: 0x557c742c08a0 - std::sys_common::backtrace::_print_fmt::h3da3ebe04fb665a8 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/sys_common/backtrace.rs:67:5 [INFO] [stderr] 3: 0x557c742c08a0 - ::fmt::he40bcdde3c4491cd [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/sys_common/backtrace.rs:46:22 [INFO] [stderr] 4: 0x557c742df2ff - core::fmt::write::h2c729149c08098ab [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/core/src/fmt/mod.rs:1094:17 [INFO] [stderr] 5: 0x557c742bde55 - std::io::Write::write_fmt::h28e0f2f58b8d7b7e [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/io/mod.rs:1578:15 [INFO] [stderr] 6: 0x557c742c281b - std::sys_common::backtrace::_print::h7f0223b1e3d898fc [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/sys_common/backtrace.rs:49:5 [INFO] [stderr] 7: 0x557c742c281b - std::sys_common::backtrace::print::h58edd634a14c2d4c [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/sys_common/backtrace.rs:36:9 [INFO] [stderr] 8: 0x557c742c281b - std::panicking::default_hook::{{closure}}::h71657a7591430164 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/panicking.rs:208:50 [INFO] [stderr] 9: 0x557c742c22fd - std::panicking::default_hook::hcdf4eb5db072c85b [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/panicking.rs:225:9 [INFO] [stderr] 10: 0x557c742c2dcd - std::panicking::rust_panic_with_hook::hfb91e961ffb5b8e0 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/panicking.rs:591:17 [INFO] [stderr] 11: 0x557c7420a193 - std::panicking::begin_panic::{{closure}}::hbdf1624754832d34 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/panicking.rs:520:9 [INFO] [stderr] 12: 0x557c742273e9 - std::sys_common::backtrace::__rust_end_short_backtrace::h44a53be4ae96d514 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/sys_common/backtrace.rs:141:18 [INFO] [stderr] 13: 0x557c7420a0c9 - std::panicking::begin_panic::hcf19953c32b35318 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/panicking.rs:519:12 [INFO] [stderr] 14: 0x557c740c5d19 - build_script_build::LibrarySearcher::try_locate_hdf5_library::h292162d037b26bc8 [INFO] [stderr] at /opt/rustwide/cargo-home/registry/src/github.com-1ecc6299db9ec823/hdf5-sys-0.7.1/build.rs:549:13 [INFO] [stderr] 15: 0x557c740c752c - build_script_build::main::he2d51ba026d51a69 [INFO] [stderr] at /opt/rustwide/cargo-home/registry/src/github.com-1ecc6299db9ec823/hdf5-sys-0.7.1/build.rs:647:9 [INFO] [stderr] 16: 0x557c740d07fb - core::ops::function::FnOnce::call_once::hf9a4dcbc3f4a291f [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/core/src/ops/function.rs:227:5 [INFO] [stderr] 17: 0x557c740d3bde - std::sys_common::backtrace::__rust_begin_short_backtrace::hc901168ca7bf6ccf [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/sys_common/backtrace.rs:125:18 [INFO] [stderr] 18: 0x557c740d0561 - std::rt::lang_start::{{closure}}::h8301f00d9b2da531 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/rt.rs:66:18 [INFO] [stderr] 19: 0x557c742c31ca - core::ops::function::impls:: for &F>::call_once::hd5953dadf0bc8f54 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/core/src/ops/function.rs:259:13 [INFO] [stderr] 20: 0x557c742c31ca - std::panicking::try::do_call::h23b369f1996fb7d4 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/panicking.rs:379:40 [INFO] [stderr] 21: 0x557c742c31ca - std::panicking::try::he017ee9ed6bce192 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/panicking.rs:343:19 [INFO] [stderr] 22: 0x557c742c31ca - std::panic::catch_unwind::hbfb892340a78b30d [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/panic.rs:431:14 [INFO] [stderr] 23: 0x557c742c31ca - std::rt::lang_start_internal::hce6e4c0ce56abb51 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/rt.rs:51:25 [INFO] [stderr] 24: 0x557c740d0540 - std::rt::lang_start::hadd42b5874a1ac57 [INFO] [stderr] at /rustc/4fa76a4a7742bb9c1febe33019f5a9e7e4839a65/library/std/src/rt.rs:65:5 [INFO] [stderr] 25: 0x557c740c8a2c - main [INFO] [stderr] 26: 0x7f0b42b310b3 - __libc_start_main [INFO] [stderr] 27: 0x557c740c0c8e - _start [INFO] [stderr] 28: 0x0 - [INFO] [stderr] warning: build failed, waiting for other jobs to finish... [INFO] [stderr] error: build failed [INFO] running `Command { std: "docker" "inspect" "a160c8834138025d1854affd9709d41e34d2de40fd5e4ff377519d4b074b134c", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "a160c8834138025d1854affd9709d41e34d2de40fd5e4ff377519d4b074b134c", kill_on_drop: false }` [INFO] [stdout] a160c8834138025d1854affd9709d41e34d2de40fd5e4ff377519d4b074b134c