[INFO] cloning repository https://github.com/COMBINE-lab/piscem
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/COMBINE-lab/piscem" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FCOMBINE-lab%2Fpiscem", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FCOMBINE-lab%2Fpiscem'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 5d79b18c05197cd2855758e37c53950c1b7e977d
[INFO] documenting COMBINE-lab/piscem against 1.76.0 for beta-1.77-rustdoc-1
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FCOMBINE-lab%2Fpiscem" "/workspace/builds/worker-2-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-2-tc1/source'...
[INFO] [stderr] done.
[INFO] validating manifest of git repo https://github.com/COMBINE-lab/piscem on toolchain 1.76.0
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.76.0" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking git repo https://github.com/COMBINE-lab/piscem
[INFO] finished tweaking git repo https://github.com/COMBINE-lab/piscem
[INFO] tweaked toml for git repo https://github.com/COMBINE-lab/piscem written to /workspace/builds/worker-2-tc1/source/Cargo.toml
[INFO] crate git repo https://github.com/COMBINE-lab/piscem 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" "+1.76.0" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded sha2-asm v0.6.3
[INFO] [stderr]   Downloaded needletail v0.5.1
[INFO] [stderr]   Downloaded prepare_fasta v0.1.0
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc1/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@sha256:2788e3201cd34a07e3172128adcd8b3090168a8e3bcc40d7c032b9dda1df7d1c" "/opt/rustwide/cargo-home/bin/cargo" "+1.76.0" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 761793cef98ef619ca68297796c3886c59dc227abc8d4b3a521869c00f506091
[INFO] running `Command { std: "docker" "start" "-a" "761793cef98ef619ca68297796c3886c59dc227abc8d4b3a521869c00f506091", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "761793cef98ef619ca68297796c3886c59dc227abc8d4b3a521869c00f506091", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "761793cef98ef619ca68297796c3886c59dc227abc8d4b3a521869c00f506091", kill_on_drop: false }`
[INFO] [stdout] 761793cef98ef619ca68297796c3886c59dc227abc8d4b3a521869c00f506091
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc1/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=warn" "-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@sha256:2788e3201cd34a07e3172128adcd8b3090168a8e3bcc40d7c032b9dda1df7d1c" "/opt/rustwide/cargo-home/bin/cargo" "+1.76.0" "doc" "--frozen" "--no-deps" "--document-private-items" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] eb9fe2a4ad505150419b673ad77eaae071943b8e3cf1228d8a4b2aae9c5c3913
[INFO] running `Command { std: "docker" "start" "-a" "eb9fe2a4ad505150419b673ad77eaae071943b8e3cf1228d8a4b2aae9c5c3913", kill_on_drop: false }`
[INFO] [stderr]    Compiling libc v0.2.153
[INFO] [stderr]    Compiling pkg-config v0.3.29
[INFO] [stderr]    Compiling proc-macro2 v1.0.78
[INFO] [stderr]    Compiling unicode-ident v1.0.12
[INFO] [stderr]    Compiling typenum v1.17.0
[INFO] [stderr]    Compiling rustix v0.38.31
[INFO] [stderr]     Checking bitflags v2.4.2
[INFO] [stderr]     Checking once_cell v1.19.0
[INFO] [stderr]     Checking linux-raw-sys v0.4.13
[INFO] [stderr]     Checking anstyle-parse v0.2.3
[INFO] [stderr]     Checking anstyle v1.0.5
[INFO] [stderr]    Compiling serde v1.0.196
[INFO] [stderr]     Checking anstyle-query v1.0.2
[INFO] [stderr]     Checking colorchoice v1.0.0
[INFO] [stderr]     Checking miniz_oxide v0.7.2
[INFO] [stderr]     Checking anstream v0.6.11
[INFO] [stderr]     Checking tracing-core v0.1.32
[INFO] [stderr]    Compiling quote v1.0.35
[INFO] [stderr]    Compiling cc v1.0.83
[INFO] [stderr]    Compiling syn v2.0.48
[INFO] [stderr]     Checking regex-syntax v0.8.2
[INFO] [stderr]    Compiling serde_json v1.0.113
[INFO] [stderr]     Checking memchr v2.7.1
[INFO] [stderr]     Checking safemem v0.3.3
[INFO] [stderr]    Compiling anyhow v1.0.79
[INFO] [stderr]     Checking terminal_size v0.3.0
[INFO] [stderr]     Checking clap_lex v0.6.0
[INFO] [stderr]     Checking flate2 v1.0.28
[INFO] [stderr]     Checking generic-array v0.14.7
[INFO] [stderr]     Checking clap_builder v4.4.18
[INFO] [stderr]     Checking buffer-redux v1.0.0
[INFO] [stderr]    Compiling cmake v0.1.50
[INFO] [stderr]     Checking ryu v1.0.16
[INFO] [stderr]     Checking block-buffer v0.10.4
[INFO] [stderr]     Checking crypto-common v0.1.6
[INFO] [stderr]     Checking itoa v1.0.10
[INFO] [stderr]     Checking digest v0.10.7
[INFO] [stderr]     Checking bytecount v0.6.7
[INFO] [stderr]     Checking log v0.4.20
[INFO] [stderr]     Checking pin-project-lite v0.2.13
[INFO] [stderr]     Checking cpufeatures v0.2.12
[INFO] [stderr]     Checking sharded-slab v0.1.7
[INFO] [stderr]     Checking regex-automata v0.4.5
[INFO] [stderr]     Checking tracing-log v0.2.0
[INFO] [stderr]     Checking thread_local v1.1.7
[INFO] [stderr]    Compiling lzma-sys v0.1.20
[INFO] [stderr]    Compiling bzip2-sys v0.1.11+1.0.8
[INFO] [stderr]    Compiling sha2-asm v0.6.3
[INFO] [stderr]    Compiling piscem v0.7.2 (/opt/rustwide/workdir)
[INFO] [stderr]     Checking xz2 v0.1.7
[INFO] [stderr] error: failed to run custom build command for `piscem v0.7.2 (/opt/rustwide/workdir)`
[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/piscem-3ac601380e68be2e/build-script-build` (exit status: 101)
[INFO] [stderr]   --- stdout
[INFO] [stderr]   cargo:rerun-if-changed=cuttlefish/CMakeLists.txt
[INFO] [stderr]   cargo:rerun-if-changed=piscem-cpp/CMakeLists.txt
[INFO] [stderr]   CMAKE_TOOLCHAIN_FILE_x86_64-unknown-linux-gnu = None
[INFO] [stderr]   CMAKE_TOOLCHAIN_FILE_x86_64_unknown_linux_gnu = None
[INFO] [stderr]   HOST_CMAKE_TOOLCHAIN_FILE = None
[INFO] [stderr]   CMAKE_TOOLCHAIN_FILE = None
[INFO] [stderr]   CMAKE_GENERATOR_x86_64-unknown-linux-gnu = None
[INFO] [stderr]   CMAKE_GENERATOR_x86_64_unknown_linux_gnu = None
[INFO] [stderr]   HOST_CMAKE_GENERATOR = None
[INFO] [stderr]   CMAKE_GENERATOR = None
[INFO] [stderr]   CMAKE_PREFIX_PATH_x86_64-unknown-linux-gnu = None
[INFO] [stderr]   CMAKE_PREFIX_PATH_x86_64_unknown_linux_gnu = None
[INFO] [stderr]   HOST_CMAKE_PREFIX_PATH = None
[INFO] [stderr]   CMAKE_PREFIX_PATH = None
[INFO] [stderr]   CMAKE_x86_64-unknown-linux-gnu = None
[INFO] [stderr]   CMAKE_x86_64_unknown_linux_gnu = None
[INFO] [stderr]   HOST_CMAKE = None
[INFO] [stderr]   CMAKE = None
[INFO] [stderr]   running: cd "/opt/rustwide/target/debug/build/piscem-f7a6251b247a52d2/out/build" && CMAKE_PREFIX_PATH="" "cmake" "/opt/rustwide/workdir/piscem-cpp" "-DCMAKE_INSTALL_PREFIX=/opt/rustwide/target/debug/build/piscem-f7a6251b247a52d2/out" "-DCMAKE_C_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_C_COMPILER=/usr/bin/cc" "-DCMAKE_CXX_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_CXX_COMPILER=/usr/bin/c++" "-DCMAKE_ASM_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_ASM_COMPILER=/usr/bin/cc" "-DCMAKE_BUILD_TYPE=Debug"
[INFO] [stderr] 
[INFO] [stderr]   --- stderr
[INFO] [stderr]   CMake Error: The source directory "/opt/rustwide/workdir/piscem-cpp" does not appear to contain CMakeLists.txt.
[INFO] [stderr]   Specify --help for usage, or press the help button on the CMake GUI.
[INFO] [stderr]   thread 'main' panicked at /opt/rustwide/cargo-home/registry/src/index.crates.io-6f17d22bba15001f/cmake-0.1.50/src/lib.rs:1098:5:
[INFO] [stderr] 
[INFO] [stderr]   command did not execute successfully, got: exit status: 1
[INFO] [stderr] 
[INFO] [stderr]   build script failed, must exit now
[INFO] [stderr]   stack backtrace:
[INFO] [stderr]      0:     0x560d516ee206 - std::backtrace_rs::backtrace::libunwind::trace::hbee8a7973eeb6c93
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/../../backtrace/src/backtrace/libunwind.rs:104:5
[INFO] [stderr]      1:     0x560d516ee206 - std::backtrace_rs::backtrace::trace_unsynchronized::hc8ac75eea3aa6899
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/../../backtrace/src/backtrace/mod.rs:66:5
[INFO] [stderr]      2:     0x560d516ee206 - std::sys_common::backtrace::_print_fmt::hc7f3e3b5298b1083
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/sys_common/backtrace.rs:68:5
[INFO] [stderr]      3:     0x560d516ee206 - <std::sys_common::backtrace::_print::DisplayBacktrace as core::fmt::Display>::fmt::hbb235daedd7c6190
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/sys_common/backtrace.rs:44:22
[INFO] [stderr]      4:     0x560d51713ad0 - core::fmt::rt::Argument::fmt::h76c38a80d925a410
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/core/src/fmt/rt.rs:142:9
[INFO] [stderr]      5:     0x560d51713ad0 - core::fmt::write::h3ed6aeaa977c8e45
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/core/src/fmt/mod.rs:1120:17
[INFO] [stderr]      6:     0x560d516eba3f - std::io::Write::write_fmt::h78b18af5775fedb5
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/io/mod.rs:1810:15
[INFO] [stderr]      7:     0x560d516edfe4 - std::sys_common::backtrace::_print::h5d645a07e0fcfdbb
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/sys_common/backtrace.rs:47:5
[INFO] [stderr]      8:     0x560d516edfe4 - std::sys_common::backtrace::print::h85035a511aafe7a8
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/sys_common/backtrace.rs:34:9
[INFO] [stderr]      9:     0x560d516ef8c7 - std::panicking::default_hook::{{closure}}::hcce8cea212785a25
[INFO] [stderr]     10:     0x560d516ef629 - std::panicking::default_hook::hf5fcb0f213fe709a
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/panicking.rs:292:9
[INFO] [stderr]     11:     0x560d516efd58 - std::panicking::rust_panic_with_hook::h095fccf1dc9379ee
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/panicking.rs:779:13
[INFO] [stderr]     12:     0x560d516efc32 - std::panicking::begin_panic_handler::{{closure}}::h032ba12139b353db
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/panicking.rs:657:13
[INFO] [stderr]     13:     0x560d516ee706 - std::sys_common::backtrace::__rust_end_short_backtrace::h9259bc2ff8fd0f76
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/sys_common/backtrace.rs:171:18
[INFO] [stderr]     14:     0x560d516ef990 - rust_begin_unwind
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/panicking.rs:645:5
[INFO] [stderr]     15:     0x560d5166d635 - core::panicking::panic_fmt::h784f20a50eaab275
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/core/src/panicking.rs:72:14
[INFO] [stderr]     16:     0x560d51686331 - cmake::fail::hade36fa46ef089dd
[INFO] [stderr]     17:     0x560d51685ac7 - cmake::run::h9440d6ecd3018dcc
[INFO] [stderr]     18:     0x560d51681c2c - cmake::Config::build::h60e8372863dc6d4d
[INFO] [stderr]     19:     0x560d51670587 - build_script_build::main::hb657320c0efe1aad
[INFO] [stderr]     20:     0x560d5166e273 - core::ops::function::FnOnce::call_once::h6c1da8b4e001af45
[INFO] [stderr]     21:     0x560d5166de36 - std::sys_common::backtrace::__rust_begin_short_backtrace::h8a78583cdf596b3d
[INFO] [stderr]     22:     0x560d5166df49 - std::rt::lang_start::{{closure}}::h48e52fea2c33fbee
[INFO] [stderr]     23:     0x560d516e7681 - core::ops::function::impls::<impl core::ops::function::FnOnce<A> for &F>::call_once::h37600b1e5eea4ecd
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/core/src/ops/function.rs:284:13
[INFO] [stderr]     24:     0x560d516e7681 - std::panicking::try::do_call::hb4bda49fa13a0c2b
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/panicking.rs:552:40
[INFO] [stderr]     25:     0x560d516e7681 - std::panicking::try::h8bbf75149211aaaa
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/panicking.rs:516:19
[INFO] [stderr]     26:     0x560d516e7681 - std::panic::catch_unwind::h8c78ec68ebea34cb
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/panic.rs:142:14
[INFO] [stderr]     27:     0x560d516e7681 - std::rt::lang_start_internal::{{closure}}::hffdf44a19fd9e220
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/rt.rs:148:48
[INFO] [stderr]     28:     0x560d516e7681 - std::panicking::try::do_call::hcb3194972c74716d
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/panicking.rs:552:40
[INFO] [stderr]     29:     0x560d516e7681 - std::panicking::try::hcdc6892c5f0dba4c
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/panicking.rs:516:19
[INFO] [stderr]     30:     0x560d516e7681 - std::panic::catch_unwind::h4910beb4573f4776
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/panic.rs:142:14
[INFO] [stderr]     31:     0x560d516e7681 - std::rt::lang_start_internal::h6939038e2873596b
[INFO] [stderr]                                  at /rustc/07dca489ac2d933c78d3c5158e3f43beefeb02ce/library/std/src/rt.rs:148:20
[INFO] [stderr]     32:     0x560d5166df27 - std::rt::lang_start::h44a707a7b2b5cb45
[INFO] [stderr]     33:     0x560d51670e35 - main
[INFO] [stderr]     34:     0x7f3bf1419d90 - <unknown>
[INFO] [stderr]     35:     0x7f3bf1419e40 - __libc_start_main
[INFO] [stderr]     36:     0x560d5166dd65 - _start
[INFO] [stderr]     37:                0x0 - <unknown>
[INFO] [stderr] warning: build failed, waiting for other jobs to finish...
[INFO] running `Command { std: "docker" "inspect" "eb9fe2a4ad505150419b673ad77eaae071943b8e3cf1228d8a4b2aae9c5c3913", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "eb9fe2a4ad505150419b673ad77eaae071943b8e3cf1228d8a4b2aae9c5c3913", kill_on_drop: false }`
[INFO] [stdout] eb9fe2a4ad505150419b673ad77eaae071943b8e3cf1228d8a4b2aae9c5c3913
