[INFO] cloning repository https://github.com/tmokveld/theseus-rs
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/tmokveld/theseus-rs" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ftmokveld%2Ftheseus-rs", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ftmokveld%2Ftheseus-rs'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 8d1ea66fb22701d57fa5b44ba930ded61e331d32
[INFO] checking tmokveld/theseus-rs against 36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6 for pr-160581
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ftmokveld%2Ftheseus-rs" "/workspace/builds/worker-3-tc2/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-3-tc2/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/tmokveld/theseus-rs
[INFO] finished tweaking git repo https://github.com/tmokveld/theseus-rs
[INFO] tweaked toml for git repo https://github.com/tmokveld/theseus-rs written to /workspace/builds/worker-3-tc2/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/tmokveld/theseus-rs on toolchain 36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/tmokveld/theseus-rs already has a lockfile, it will not be regenerated
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6" "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
[ERROR] error running command: no output for 300 seconds
[INFO] checking tmokveld/theseus-rs against 36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6 for pr-160581
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ftmokveld%2Ftheseus-rs" "/workspace/builds/worker-3-tc2/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-3-tc2/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/tmokveld/theseus-rs
[INFO] finished tweaking git repo https://github.com/tmokveld/theseus-rs
[INFO] tweaked toml for git repo https://github.com/tmokveld/theseus-rs written to /workspace/builds/worker-3-tc2/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/tmokveld/theseus-rs on toolchain 36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/tmokveld/theseus-rs already has a lockfile, it will not be regenerated
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6" "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-tc2/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc2/target:/opt/rustwide/target:rw,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" "-m" "1610612736" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:8683fc1fc2eb5c9ac98e0d076ab094b2ffac7f99da555d2b6a2e27f346de2ec7" "sleep" "infinity", kill_on_drop: false }`
[INFO] [stdout] 62f0dfc144b19139f9edb0876ff5d8cebd008d776a39fed474b4fdc77b4224aa
[INFO] running `Command { std: "docker" "start" "62f0dfc144b19139f9edb0876ff5d8cebd008d776a39fed474b4fdc77b4224aa", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "62f0dfc144b19139f9edb0876ff5d8cebd008d776a39fed474b4fdc77b4224aa", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-w" "/opt/rustwide/workdir" "--user" "0:0" "62f0dfc144b19139f9edb0876ff5d8cebd008d776a39fed474b4fdc77b4224aa" "/opt/rustwide/cargo-home/bin/cargo" "+36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "62f0dfc144b19139f9edb0876ff5d8cebd008d776a39fed474b4fdc77b4224aa", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "RUSTDOCFLAGS=--cap-lints=forbid" "-w" "/opt/rustwide/workdir" "--user" "0:0" "62f0dfc144b19139f9edb0876ff5d8cebd008d776a39fed474b4fdc77b4224aa" "/opt/rustwide/cargo-home/bin/cargo" "+36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr]    Compiling cmake v0.1.57
[INFO] [stderr]    Compiling syn v2.0.116
[INFO] [stderr]    Compiling theseus-lib-sys v0.1.0 (/opt/rustwide/workdir/theseus-sys)
[INFO] [stderr] error: failed to run custom build command for `theseus-lib-sys v0.1.0 (/opt/rustwide/workdir/theseus-sys)`
[INFO] [stderr] note: To improve backtraces for build dependencies, set the CARGO_PROFILE_DEV_BUILD_OVERRIDE_DEBUG=true environment variable to enable debug information generation.
[INFO] [stderr] 
[INFO] [stderr] Caused by:
[INFO] [stderr]   process didn't exit successfully: `/opt/rustwide/target/debug/build/theseus-lib-sys/dd88f1194a83e195/out/build_script_build` (exit status: 101)
[INFO] [stderr]   --- stdout
[INFO] [stderr]   cargo:rerun-if-changed=build.rs
[INFO] [stderr]   cargo:rerun-if-env-changed=THESEUS_CMAKE_BUILD_TYPE
[INFO] [stderr]   cargo:rerun-if-env-changed=LIBCLANG_PATH
[INFO] [stderr]   cargo:rerun-if-env-changed=BINDGEN_EXTRA_CLANG_ARGS
[INFO] [stderr]   cargo:rerun-if-changed=/opt/rustwide/workdir/theseus-sys/shim/theseus_rs_shim.h
[INFO] [stderr]   cargo:rerun-if-changed=/opt/rustwide/workdir/theseus-sys/shim/theseus_rs_shim.cpp
[INFO] [stderr]   cargo:rerun-if-changed=/opt/rustwide/workdir/theseus-sys/theseus-lib/CMakeLists.txt
[INFO] [stderr]   cargo:rerun-if-changed=/opt/rustwide/workdir/theseus-sys/theseus-lib/include/theseus/theseus_msa_aligner.h
[INFO] [stderr]   cargo:rerun-if-changed=/opt/rustwide/workdir/theseus-sys/theseus-lib/include/theseus/theseus_aligner.h
[INFO] [stderr]   cargo:rerun-if-changed=/opt/rustwide/workdir/theseus-sys/theseus-lib/theseus/theseus_msa_aligner.cpp
[INFO] [stderr]   cargo:rerun-if-changed=/opt/rustwide/workdir/theseus-sys/theseus-lib/theseus/theseus_aligner.cpp
[INFO] [stderr]   cargo:rerun-if-changed=/opt/rustwide/workdir/theseus-sys/theseus-lib/theseus/vector.h
[INFO] [stderr]   cargo:rerun-if-changed=/opt/rustwide/workdir/theseus-sys/theseus-lib/theseus/graph.cpp
[INFO] [stderr] 
[INFO] [stderr]   --- stderr
[INFO] [stderr] 
[INFO] [stderr]   thread 'main' (88) panicked at theseus-sys/build.rs:150:5:
[INFO] [stderr]   Missing vendored theseus-lib files: ["/opt/rustwide/workdir/theseus-sys/theseus-lib/CMakeLists.txt", "/opt/rustwide/workdir/theseus-sys/theseus-lib/include/theseus/theseus_msa_aligner.h", "/opt/rustwide/workdir/theseus-sys/theseus-lib/theseus/theseus_msa_aligner.cpp"]. Run: git submodule update --init --recursive
[INFO] [stderr]   stack backtrace:
[INFO] [stderr]      0:     0x5a3300f3e881 - std[7e3a18b272cf1acb]::backtrace_rs::backtrace::libunwind::trace
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/../../backtrace/src/backtrace/libunwind.rs:117:9
[INFO] [stderr]      1:     0x5a3300f3e881 - std[7e3a18b272cf1acb]::backtrace_rs::backtrace::trace_unsynchronized::<std[7e3a18b272cf1acb]::sys::backtrace::_print_fmt::{closure#1}>
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/../../backtrace/src/backtrace/mod.rs:66:14
[INFO] [stderr]      2:     0x5a3300f3e881 - std[7e3a18b272cf1acb]::sys::backtrace::_print_fmt
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/sys/backtrace.rs:74:9
[INFO] [stderr]      3:     0x5a3300f3e881 - <<std[7e3a18b272cf1acb]::sys::backtrace::BacktraceLock>::print::DisplayBacktrace as core[6d8355b08ae704c6]::fmt::Display>::fmt
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/sys/backtrace.rs:44:26
[INFO] [stderr]      4:     0x5a3300f5391a - <core[6d8355b08ae704c6]::fmt::rt::Argument>::fmt
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/core/src/fmt/rt.rs:152:76
[INFO] [stderr]      5:     0x5a3300f5391a - core[6d8355b08ae704c6]::fmt::write
[INFO] [stderr]      6:     0x5a3300f444fc - core[6d8355b08ae704c6]::io::write::default_write_fmt::<std[7e3a18b272cf1acb]::sys::stdio::unix::Stderr>
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/core/src/io/write.rs:402:11
[INFO] [stderr]      7:     0x5a3300f444fc - <std[7e3a18b272cf1acb]::sys::stdio::unix::Stderr as core[6d8355b08ae704c6]::io::write::Write>::write_fmt
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/core/src/io/write.rs:335:13
[INFO] [stderr]      8:     0x5a3300f1b406 - <std[7e3a18b272cf1acb]::sys::backtrace::BacktraceLock>::print
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/sys/backtrace.rs:47:9
[INFO] [stderr]      9:     0x5a3300f1b406 - std[7e3a18b272cf1acb]::panicking::default_hook::{closure#0}
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/panicking.rs:292:27
[INFO] [stderr]     10:     0x5a3300f37b91 - std[7e3a18b272cf1acb]::panicking::default_hook
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/panicking.rs:319:9
[INFO] [stderr]     11:     0x5a3300f37d4b - std[7e3a18b272cf1acb]::panicking::panic_with_hook
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/panicking.rs:815:13
[INFO] [stderr]     12:     0x5a3300f1b4b2 - std[7e3a18b272cf1acb]::panicking::panic_handler::{closure#0}
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/panicking.rs:688:13
[INFO] [stderr]     13:     0x5a3300f13e99 - std[7e3a18b272cf1acb]::sys::backtrace::__rust_end_short_backtrace::<std[7e3a18b272cf1acb]::panicking::panic_handler::{closure#0}, !>
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/sys/backtrace.rs:182:18
[INFO] [stderr]     14:     0x5a3300f1bd8d - __rustc[8de7746e9ac79425]::rust_begin_unwind
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/panicking.rs:679:5
[INFO] [stderr]     15:     0x5a3300f5410c - core[6d8355b08ae704c6]::panicking::panic_fmt
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/core/src/panicking.rs:80:14
[INFO] [stderr]     16:     0x5a3300e82d29 - build_script_build[8599c2d8d54701cd]::assert_submodule_present
[INFO] [stderr]     17:     0x5a3300e84062 - build_script_build[8599c2d8d54701cd]::main
[INFO] [stderr]     18:     0x5a3300e86503 - <fn() as core[6d8355b08ae704c6]::ops::function::FnOnce<()>>::call_once
[INFO] [stderr]     19:     0x5a3300e8161e - std[7e3a18b272cf1acb]::sys::backtrace::__rust_begin_short_backtrace::<fn(), ()>
[INFO] [stderr]     20:     0x5a3300e81739 - std[7e3a18b272cf1acb]::rt::lang_start::<()>::{closure#0}
[INFO] [stderr]     21:     0x5a3300f36db7 - <&dyn core[6d8355b08ae704c6]::ops::function::Fn<(), Output = i32> + core[6d8355b08ae704c6]::marker::Sync + core[6d8355b08ae704c6]::panic::unwind_safe::RefUnwindSafe as core[6d8355b08ae704c6]::ops::function::FnOnce<()>>::call_once
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/core/src/ops/function.rs:287:21
[INFO] [stderr]     22:     0x5a3300f36db7 - std[7e3a18b272cf1acb]::panicking::catch_unwind::do_call::<&dyn core[6d8355b08ae704c6]::ops::function::Fn<(), Output = i32> + core[6d8355b08ae704c6]::marker::Sync + core[6d8355b08ae704c6]::panic::unwind_safe::RefUnwindSafe, i32>
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/panicking.rs:576:43
[INFO] [stderr]     23:     0x5a3300f36db7 - std[7e3a18b272cf1acb]::panicking::catch_unwind::<i32, &dyn core[6d8355b08ae704c6]::ops::function::Fn<(), Output = i32> + core[6d8355b08ae704c6]::marker::Sync + core[6d8355b08ae704c6]::panic::unwind_safe::RefUnwindSafe>
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/panicking.rs:544:19
[INFO] [stderr]     24:     0x5a3300f36db7 - std[7e3a18b272cf1acb]::panic::catch_unwind::<&dyn core[6d8355b08ae704c6]::ops::function::Fn<(), Output = i32> + core[6d8355b08ae704c6]::marker::Sync + core[6d8355b08ae704c6]::panic::unwind_safe::RefUnwindSafe, i32>
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/panic.rs:359:14
[INFO] [stderr]     25:     0x5a3300f36db7 - std[7e3a18b272cf1acb]::rt::lang_start_internal::{closure#0}
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/rt.rs:175:24
[INFO] [stderr]     26:     0x5a3300f36db7 - std[7e3a18b272cf1acb]::panicking::catch_unwind::do_call::<std[7e3a18b272cf1acb]::rt::lang_start_internal::{closure#0}, isize>
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/panicking.rs:576:43
[INFO] [stderr]     27:     0x5a3300f36db7 - std[7e3a18b272cf1acb]::panicking::catch_unwind::<isize, std[7e3a18b272cf1acb]::rt::lang_start_internal::{closure#0}>
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/panicking.rs:544:19
[INFO] [stderr]     28:     0x5a3300f36db7 - std[7e3a18b272cf1acb]::panic::catch_unwind::<std[7e3a18b272cf1acb]::rt::lang_start_internal::{closure#0}, isize>
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/panic.rs:359:14
[INFO] [stderr]     29:     0x5a3300f36db7 - std[7e3a18b272cf1acb]::rt::lang_start_internal
[INFO] [stderr]                                  at /rustc/36e0a7eac2392bdd51fab6e7ff1d8c0e42d33bf6/library/std/src/rt.rs:171:5
[INFO] [stderr]     30:     0x5a3300e81611 - std[7e3a18b272cf1acb]::rt::lang_start::<()>
[INFO] [stderr]     31:     0x5a3300e86585 - main
[INFO] [stderr]     32:     0x7a0f84f94601 - <unknown>
[INFO] [stderr]     33:     0x7a0f84f94718 - __libc_start_main
[INFO] [stderr]     34:     0x5a3300e7fa25 - _start
[INFO] [stderr]     35:                0x0 - <unknown>
[INFO] [stderr] warning: build failed, waiting for other jobs to finish...
[INFO] running `Command { std: "docker" "inspect" "62f0dfc144b19139f9edb0876ff5d8cebd008d776a39fed474b4fdc77b4224aa", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "62f0dfc144b19139f9edb0876ff5d8cebd008d776a39fed474b4fdc77b4224aa", kill_on_drop: false }`
[INFO] [stdout] 62f0dfc144b19139f9edb0876ff5d8cebd008d776a39fed474b4fdc77b4224aa
