[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] checking swemeshy/counts_to_csv against try#8de4b308b608cded0ebccf658a0fc719bce87d4e for pr-89056 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fswemeshy%2Fcounts_to_csv" "/workspace/builds/worker-81/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-81/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/swemeshy/counts_to_csv on toolchain 8de4b308b608cded0ebccf658a0fc719bce87d4e [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+8de4b308b608cded0ebccf658a0fc719bce87d4e" "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-81/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" "+8de4b308b608cded0ebccf658a0fc719bce87d4e" "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-81/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-81/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:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+8de4b308b608cded0ebccf658a0fc719bce87d4e" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 1ddba298cafff56569d873a1d1615ab65a554d2f2ffca1693aad1ba18bea37af [INFO] running `Command { std: "docker" "start" "-a" "1ddba298cafff56569d873a1d1615ab65a554d2f2ffca1693aad1ba18bea37af", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "1ddba298cafff56569d873a1d1615ab65a554d2f2ffca1693aad1ba18bea37af", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "1ddba298cafff56569d873a1d1615ab65a554d2f2ffca1693aad1ba18bea37af", kill_on_drop: false }` [INFO] [stdout] 1ddba298cafff56569d873a1d1615ab65a554d2f2ffca1693aad1ba18bea37af [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-81/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-81/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:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+8de4b308b608cded0ebccf658a0fc719bce87d4e" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 68bfbfb30a631b20ecd5b175742b10bd1a461998e39110fe6ffec7e7b8fe48b5 [INFO] running `Command { std: "docker" "start" "-a" "68bfbfb30a631b20ecd5b175742b10bd1a461998e39110fe6ffec7e7b8fe48b5", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Compiling autocfg v1.0.1 [INFO] [stderr] Compiling libc v0.2.88 [INFO] [stderr] Compiling syn v1.0.67 [INFO] [stderr] Compiling memchr v2.3.4 [INFO] [stderr] Compiling libm v0.2.1 [INFO] [stderr] Compiling regex-syntax v0.6.23 [INFO] [stderr] Compiling version_check v0.9.3 [INFO] [stderr] Compiling proc-macro-hack v0.5.19 [INFO] [stderr] Compiling pkg-config v0.3.19 [INFO] [stderr] Checking rawpointer v0.2.1 [INFO] [stderr] Compiling serde_derive v1.0.124 [INFO] [stderr] Checking smallvec v1.6.1 [INFO] [stderr] Compiling rayon-core v1.9.0 [INFO] [stderr] Checking unicode-width v0.1.8 [INFO] [stderr] Compiling serde v1.0.124 [INFO] [stderr] Compiling inventory v0.1.10 [INFO] [stderr] Compiling hdf5-types v0.7.1 (https://github.com/aldanor/hdf5-rust.git?rev=24beeaa914a05c67adc78f0c161925fd4627d407#24beeaa9) [INFO] [stderr] Compiling ndarray v0.13.1 [INFO] [stderr] Compiling unicode-segmentation v1.7.1 [INFO] [stderr] Compiling unindent v0.1.7 [INFO] [stderr] Checking byteorder v1.4.3 [INFO] [stderr] Checking ascii v1.0.0 [INFO] [stderr] Compiling hdf5 v0.7.1 (https://github.com/aldanor/hdf5-rust.git?rev=24beeaa914a05c67adc78f0c161925fd4627d407#24beeaa9) [INFO] [stderr] Compiling anyhow v1.0.38 [INFO] [stderr] Checking hashbrown v0.9.1 [INFO] [stderr] Compiling pyo3 v0.13.2 [INFO] [stderr] Checking itoa v0.4.7 [INFO] [stderr] Checking vec_map v0.8.2 [INFO] [stderr] Checking os_str_bytes v2.4.0 [INFO] [stderr] Checking strsim v0.10.0 [INFO] [stderr] Checking termcolor v1.1.2 [INFO] [stderr] Compiling libloading v0.7.0 [INFO] [stderr] Checking instant v0.1.9 [INFO] [stderr] Checking lock_api v0.4.2 [INFO] [stderr] Checking textwrap v0.12.1 [INFO] [stderr] Checking matrixmultiply v0.3.1 [INFO] [stderr] Checking matrixmultiply v0.2.4 [INFO] [stderr] Checking regex-automata v0.1.9 [INFO] [stderr] Compiling heck v0.3.2 [INFO] [stderr] Compiling proc-macro-error-attr v1.0.4 [INFO] [stderr] Compiling proc-macro-error v1.0.4 [INFO] [stderr] Compiling num-traits v0.2.14 [INFO] [stderr] Compiling crossbeam-utils v0.8.3 [INFO] [stderr] Compiling num-integer v0.1.44 [INFO] [stderr] Compiling memoffset v0.6.1 [INFO] [stderr] Compiling num-complex v0.2.4 [INFO] [stderr] Compiling indexmap v1.6.2 [INFO] [stderr] Compiling rayon v1.5.0 [INFO] [stderr] Compiling paste-impl v0.1.18 [INFO] [stderr] Compiling aho-corasick v0.7.15 [INFO] [stderr] Checking csv-core v0.1.10 [INFO] [stderr] Checking paste v0.1.18 [INFO] [stderr] Checking atty v0.2.14 [INFO] [stderr] Checking num_cpus v1.13.0 [INFO] [stderr] Checking parking_lot_core v0.8.3 [INFO] [stderr] Checking terminal_size v0.1.16 [INFO] [stderr] Checking time v0.1.44 [INFO] [stderr] Checking colored v1.9.3 [INFO] [stderr] Checking crossbeam-epoch v0.9.3 [INFO] [stderr] Checking crossbeam-channel v0.5.0 [INFO] [stderr] Checking parking_lot v0.11.1 [INFO] [stderr] Checking num-complex v0.4.0 [INFO] [stderr] Checking approx v0.3.2 [INFO] [stderr] Checking regex v1.4.4 [INFO] [stderr] Checking crossbeam-deque v0.8.0 [INFO] [stderr] Checking chrono v0.4.19 [INFO] [stderr] Checking alga v0.9.3 [INFO] [stderr] Checking ndarray v0.15.3 [INFO] [stderr] Checking console v0.14.1 [INFO] [stderr] Checking simple_logger v1.11.0 [INFO] [stderr] Compiling pyo3-macros-backend v0.13.2 [INFO] [stderr] Checking indicatif v0.15.0 [INFO] [stderr] Checking sprs v0.9.4 [INFO] [stderr] Compiling indoc-impl v0.3.6 [INFO] [stderr] Compiling ctor v0.1.20 [INFO] [stderr] Compiling inventory-impl v0.1.10 [INFO] [stderr] Compiling ghost v0.1.2 [INFO] [stderr] Compiling hdf5-derive v0.7.1 (https://github.com/aldanor/hdf5-rust.git?rev=24beeaa914a05c67adc78f0c161925fd4627d407#24beeaa9) [INFO] [stderr] Compiling clap_derive v3.0.0-beta.2 [INFO] [stderr] Compiling pyo3-macros v0.13.2 [INFO] [stderr] Compiling hdf5-sys v0.7.1 (https://github.com/aldanor/hdf5-rust.git?rev=24beeaa914a05c67adc78f0c161925fd4627d407#24beeaa9) [INFO] [stderr] Checking indoc v0.3.6 [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-f55201341888becd/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: 0x5641fbb1124c - std::backtrace_rs::backtrace::libunwind::trace::h2ab374bc2a3b7023 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/../../backtrace/src/backtrace/libunwind.rs:90:5 [INFO] [stderr] 1: 0x5641fbb1124c - std::backtrace_rs::backtrace::trace_unsynchronized::h128cb5178b04dc46 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/../../backtrace/src/backtrace/mod.rs:66:5 [INFO] [stderr] 2: 0x5641fbb1124c - std::sys_common::backtrace::_print_fmt::h5344f9eefca2041f [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/sys_common/backtrace.rs:67:5 [INFO] [stderr] 3: 0x5641fbb1124c - ::fmt::h213003bc5c7acf04 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/sys_common/backtrace.rs:46:22 [INFO] [stderr] 4: 0x5641fbb305fc - core::fmt::write::h78bf85fc3e93663f [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/core/src/fmt/mod.rs:1126:17 [INFO] [stderr] 5: 0x5641fbb0e3c5 - std::io::Write::write_fmt::he619515c888f21a5 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/io/mod.rs:1667:15 [INFO] [stderr] 6: 0x5641fbb12cb0 - std::sys_common::backtrace::_print::hf706674f77848203 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/sys_common/backtrace.rs:49:5 [INFO] [stderr] 7: 0x5641fbb12cb0 - std::sys_common::backtrace::print::hf0b6c7a88804ec56 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/sys_common/backtrace.rs:36:9 [INFO] [stderr] 8: 0x5641fbb12cb0 - std::panicking::default_hook::{{closure}}::h2dde766cd83a333a [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/panicking.rs:210:50 [INFO] [stderr] 9: 0x5641fbb12867 - std::panicking::default_hook::h501e3b2e134eb149 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/panicking.rs:227:9 [INFO] [stderr] 10: 0x5641fbb13364 - std::panicking::rust_panic_with_hook::hc09e869c4cf00885 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/panicking.rs:624:17 [INFO] [stderr] 11: 0x5641fba51992 - std::panicking::begin_panic::{{closure}}::h7b2ee0ae90dfa283 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/panicking.rs:544:9 [INFO] [stderr] 12: 0x5641fba3ad69 - std::sys_common::backtrace::__rust_end_short_backtrace::h32b29206b1922905 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/sys_common/backtrace.rs:141:18 [INFO] [stderr] 13: 0x5641fba518d3 - std::panicking::begin_panic::h6da959080722b61f [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/panicking.rs:543:12 [INFO] [stderr] 14: 0x5641fb915bb7 - build_script_build::LibrarySearcher::try_locate_hdf5_library::h55996b65dcaba399 [INFO] [stderr] at /opt/rustwide/cargo-home/git/checkouts/hdf5-rust-c1072d7a2617f7d8/24beeaa/hdf5-sys/build.rs:547:13 [INFO] [stderr] 15: 0x5641fb917477 - build_script_build::main::he52794673f2efa48 [INFO] [stderr] at /opt/rustwide/cargo-home/git/checkouts/hdf5-rust-c1072d7a2617f7d8/24beeaa/hdf5-sys/build.rs:645:9 [INFO] [stderr] 16: 0x5641fb92452b - core::ops::function::FnOnce::call_once::h283491f214f32e11 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/core/src/ops/function.rs:227:5 [INFO] [stderr] 17: 0x5641fb9241be - std::sys_common::backtrace::__rust_begin_short_backtrace::hf736c078c5b147fa [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/sys_common/backtrace.rs:125:18 [INFO] [stderr] 18: 0x5641fb91fcd1 - std::rt::lang_start::{{closure}}::h36b8ccd38ef08b94 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/rt.rs:64:18 [INFO] [stderr] 19: 0x5641fbb1386a - core::ops::function::impls:: for &F>::call_once::hab43eb8ec758341e [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/core/src/ops/function.rs:259:13 [INFO] [stderr] 20: 0x5641fbb1386a - std::panicking::try::do_call::hb667fefd650e964d [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/panicking.rs:403:40 [INFO] [stderr] 21: 0x5641fbb1386a - std::panicking::try::hc279775c9409768d [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/panicking.rs:367:19 [INFO] [stderr] 22: 0x5641fbb1386a - std::panic::catch_unwind::hbe8b6ecc84f73073 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/panic.rs:133:14 [INFO] [stderr] 23: 0x5641fbb1386a - std::rt::lang_start_internal::{{closure}}::hb04fdaef496a162b [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/rt.rs:46:48 [INFO] [stderr] 24: 0x5641fbb1386a - std::panicking::try::do_call::habca359de051411d [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/panicking.rs:403:40 [INFO] [stderr] 25: 0x5641fbb1386a - std::panicking::try::h24c556a6948e0937 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/panicking.rs:367:19 [INFO] [stderr] 26: 0x5641fbb1386a - std::panic::catch_unwind::h58075d47f5a308d8 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/panic.rs:133:14 [INFO] [stderr] 27: 0x5641fbb1386a - std::rt::lang_start_internal::h3d20dc1537d76758 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/rt.rs:46:20 [INFO] [stderr] 28: 0x5641fb91fca0 - std::rt::lang_start::h5474a5f944692269 [INFO] [stderr] at /rustc/8de4b308b608cded0ebccf658a0fc719bce87d4e/library/std/src/rt.rs:63:17 [INFO] [stderr] 29: 0x5641fb91898c - main [INFO] [stderr] 30: 0x7f4028a300b3 - __libc_start_main [INFO] [stderr] 31: 0x5641fb910e8e - _start [INFO] [stderr] 32: 0x0 - [INFO] [stderr] warning: build failed, waiting for other jobs to finish... [INFO] [stderr] error: build failed [INFO] running `Command { std: "docker" "inspect" "68bfbfb30a631b20ecd5b175742b10bd1a461998e39110fe6ffec7e7b8fe48b5", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "68bfbfb30a631b20ecd5b175742b10bd1a461998e39110fe6ffec7e7b8fe48b5", kill_on_drop: false }` [INFO] [stdout] 68bfbfb30a631b20ecd5b175742b10bd1a461998e39110fe6ffec7e7b8fe48b5