[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] a12e1ee0bfbf88a0208153fd49331c69b7c970ec
[INFO] checking COMBINE-lab/piscem against master#779e19d8baa3e3625bd4fc5c85cbb2ad47b43155 for pr-147589-1
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FCOMBINE-lab%2Fpiscem" "/workspace/builds/worker-1-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-1-tc1/source'...
[INFO] [stderr] done.
[INFO] removed /workspace/builds/worker-1-tc1/source/.cargo/config.toml
[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-1-tc1/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/COMBINE-lab/piscem on toolchain 779e19d8baa3e3625bd4fc5c85cbb2ad47b43155
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+779e19d8baa3e3625bd4fc5c85cbb2ad47b43155" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[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" "+779e19d8baa3e3625bd4fc5c85cbb2ad47b43155" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded buffer-redux v1.0.2
[INFO] [stderr]   Downloaded path-tools v0.1.0
[INFO] [stderr]   Downloaded prepare_fasta v0.2.0
[INFO] [stderr]   Downloaded liblzma v0.3.6
[INFO] [stderr]   Downloaded needletail v0.6.3
[INFO] [stderr]   Downloaded liblzma-sys v0.3.13
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+779e19d8baa3e3625bd4fc5c85cbb2ad47b43155" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] e511b0a4f3d70bb8c2b8401b0242de9aee1696e5fed8a76b052e8c32e2cdb674
[INFO] running `Command { std: "docker" "start" "-a" "e511b0a4f3d70bb8c2b8401b0242de9aee1696e5fed8a76b052e8c32e2cdb674", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "e511b0a4f3d70bb8c2b8401b0242de9aee1696e5fed8a76b052e8c32e2cdb674", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "e511b0a4f3d70bb8c2b8401b0242de9aee1696e5fed8a76b052e8c32e2cdb674", kill_on_drop: false }`
[INFO] [stdout] e511b0a4f3d70bb8c2b8401b0242de9aee1696e5fed8a76b052e8c32e2cdb674
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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=forbid" "-e" "RUSTDOCFLAGS=--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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+779e19d8baa3e3625bd4fc5c85cbb2ad47b43155" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 4dc48f625065418476aef30e91df7dfb10d4f44f635ab24f5a9553250878ab10
[INFO] running `Command { std: "docker" "start" "-a" "4dc48f625065418476aef30e91df7dfb10d4f44f635ab24f5a9553250878ab10", kill_on_drop: false }`
[INFO] [stderr]    Compiling rustix v1.0.7
[INFO] [stderr]    Compiling zstd-safe v7.2.4
[INFO] [stderr]     Checking linux-raw-sys v0.9.4
[INFO] [stderr]     Checking anstyle-query v1.1.3
[INFO] [stderr]    Compiling libc v0.2.174
[INFO] [stderr]    Compiling serde v1.0.219
[INFO] [stderr]     Checking miniz_oxide v0.8.9
[INFO] [stderr]     Checking crc32fast v1.5.0
[INFO] [stderr]    Compiling syn v2.0.104
[INFO] [stderr]     Checking buffer-redux v1.0.2
[INFO] [stderr]     Checking bytecount v0.6.9
[INFO] [stderr]     Checking tracing-log v0.2.0
[INFO] [stderr]     Checking path-tools v0.1.0
[INFO] [stderr]     Checking num_cpus v1.17.0
[INFO] [stderr]     Checking anstream v0.6.19
[INFO] [stderr]     Checking flate2 v1.1.2
[INFO] [stderr]     Checking terminal_size v0.4.2
[INFO] [stderr]    Compiling jobserver v0.1.33
[INFO] [stderr]     Checking clap_builder v4.5.41
[INFO] [stderr]    Compiling cc v1.2.29
[INFO] [stderr]    Compiling cmake v0.1.54
[INFO] [stderr]    Compiling zstd-sys v2.0.15+zstd.1.5.7
[INFO] [stderr]    Compiling bzip2-sys v0.1.13+1.0.8
[INFO] [stderr]    Compiling liblzma-sys v0.3.13
[INFO] [stderr]    Compiling sha2-asm v0.6.4
[INFO] [stderr]    Compiling piscem v0.14.2 (/opt/rustwide/workdir)
[INFO] [stderr]     Checking sha2 v0.10.9
[INFO] [stderr]     Checking serde_json v1.0.140
[INFO] [stderr] error: failed to run custom build command for `piscem v0.14.2 (/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-a18cc19cefaecc4e/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-1224c0b6df810478/out/build" && CMAKE_PREFIX_PATH="" LC_ALL="C" "cmake" "/opt/rustwide/workdir/piscem-cpp" "-DCMAKE_INSTALL_PREFIX=/opt/rustwide/target/debug/build/piscem-1224c0b6df810478/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 Warning:
[INFO] [stderr]     Ignoring extra path from command line:
[INFO] [stderr] 
[INFO] [stderr]      "/opt/rustwide/workdir/piscem-cpp"
[INFO] [stderr] 
[INFO] [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] 
[INFO] [stderr]   thread 'main' (510) panicked at /opt/rustwide/cargo-home/registry/src/index.crates.io-1949cf8c6b5b557f/cmake-0.1.54/src/lib.rs:1119:5:
[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:     0x597929b95ee2 - std::backtrace_rs::backtrace::libunwind::trace::h12d94fb93e64efeb
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/../../backtrace/src/backtrace/libunwind.rs:117:9
[INFO] [stderr]      1:     0x597929b95ee2 - std::backtrace_rs::backtrace::trace_unsynchronized::h138fa2876d6b998b
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/../../backtrace/src/backtrace/mod.rs:66:14
[INFO] [stderr]      2:     0x597929b95ee2 - std::sys::backtrace::_print_fmt::h352b2bf08234f7a5
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/sys/backtrace.rs:66:9
[INFO] [stderr]      3:     0x597929b95ee2 - <std::sys::backtrace::BacktraceLock::print::DisplayBacktrace as core::fmt::Display>::fmt::h6d19077111bf2052
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/sys/backtrace.rs:39:26
[INFO] [stderr]      4:     0x597929ba60af - core::fmt::rt::Argument::fmt::h4b5114a56e27e6d3
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/core/src/fmt/rt.rs:173:76
[INFO] [stderr]      5:     0x597929ba60af - core::fmt::write::hdcf21b4a8a83514e
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/core/src/fmt/mod.rs:1469:25
[INFO] [stderr]      6:     0x597929b66b33 - std::io::default_write_fmt::h19759bcf5cab25d1
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/io/mod.rs:639:11
[INFO] [stderr]      7:     0x597929b66b33 - std::io::Write::write_fmt::h4b06d7fb18f8204b
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/io/mod.rs:1954:13
[INFO] [stderr]      8:     0x597929b717b2 - std::sys::backtrace::BacktraceLock::print::hc2b4875f5d80034d
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/sys/backtrace.rs:42:9
[INFO] [stderr]      9:     0x597929b73e8c - std::panicking::default_hook::{{closure}}::h905a8c4092e100bb
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/panicking.rs:301:27
[INFO] [stderr]     10:     0x597929b73ce6 - std::panicking::default_hook::h82491bd5e973bcd1
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/panicking.rs:328:9
[INFO] [stderr]     11:     0x597929b74465 - std::panicking::panic_with_hook::had69cba82e257263
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/panicking.rs:834:13
[INFO] [stderr]     12:     0x597929b742fa - std::panicking::panic_handler::{{closure}}::h3dd7223ffdfb0831
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/panicking.rs:707:13
[INFO] [stderr]     13:     0x597929b718f9 - std::sys::backtrace::__rust_end_short_backtrace::h70d9c3ecea2861c6
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/sys/backtrace.rs:174:18
[INFO] [stderr]     14:     0x597929b5aecd - __rustc[d9c763ef9790d63a]::rust_begin_unwind
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/panicking.rs:698:5
[INFO] [stderr]     15:     0x597929ba9c50 - core::panicking::panic_fmt::h035a98694b847710
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/core/src/panicking.rs:80:14
[INFO] [stderr]     16:     0x597929aee56b - cmake::fail::h4d6925daa3c4303b
[INFO] [stderr]     17:     0x597929aee1f2 - cmake::run::h1c8427b809a94a31
[INFO] [stderr]     18:     0x597929af3cda - cmake::Config::build::he54375f47f6a2898
[INFO] [stderr]     19:     0x597929ae57c3 - build_script_build::main::h3d81af062d5c8232
[INFO] [stderr]     20:     0x597929ae77e3 - core::ops::function::FnOnce::call_once::hc5fa957795e34283
[INFO] [stderr]     21:     0x597929ae7776 - std::sys::backtrace::__rust_begin_short_backtrace::h4bd59ca027080964
[INFO] [stderr]     22:     0x597929ae76a9 - std::rt::lang_start::{{closure}}::h405bd4e2969cbd03
[INFO] [stderr]     23:     0x597929b68510 - core::ops::function::impls::<impl core::ops::function::FnOnce<A> for &F>::call_once::h39df14509648ffd9
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/core/src/ops/function.rs:287:21
[INFO] [stderr]     24:     0x597929b68510 - std::panicking::catch_unwind::do_call::h249a5e8553e6a2ed
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/panicking.rs:590:40
[INFO] [stderr]     25:     0x597929b68510 - std::panicking::catch_unwind::h4cc7d4b5009664c5
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/panicking.rs:553:19
[INFO] [stderr]     26:     0x597929b68510 - std::panic::catch_unwind::hf62421fb31235dcd
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/panic.rs:359:14
[INFO] [stderr]     27:     0x597929b68510 - std::rt::lang_start_internal::{{closure}}::h044ee053c1a7ce48
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/rt.rs:175:24
[INFO] [stderr]     28:     0x597929b68510 - std::panicking::catch_unwind::do_call::h78b113f7316d4f0c
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/panicking.rs:590:40
[INFO] [stderr]     29:     0x597929b68510 - std::panicking::catch_unwind::h2619b5b3b0db8d93
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/panicking.rs:553:19
[INFO] [stderr]     30:     0x597929b68510 - std::panic::catch_unwind::he49e81b228594388
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/panic.rs:359:14
[INFO] [stderr]     31:     0x597929b68510 - std::rt::lang_start_internal::hd032eef47164dbcf
[INFO] [stderr]                                  at /rustc/779e19d8baa3e3625bd4fc5c85cbb2ad47b43155/library/std/src/rt.rs:171:5
[INFO] [stderr]     32:     0x597929ae7691 - std::rt::lang_start::h9a4e7ac9ae403eba
[INFO] [stderr]     33:     0x597929ae9435 - main
[INFO] [stderr]     34:     0x7ca3bea731ca - <unknown>
[INFO] [stderr]     35:     0x7ca3bea7328b - __libc_start_main
[INFO] [stderr]     36:     0x597929ae4635 - _start
[INFO] [stderr]     37:                0x0 - <unknown>
[INFO] [stderr] warning: build failed, waiting for other jobs to finish...
[INFO] running `Command { std: "docker" "inspect" "4dc48f625065418476aef30e91df7dfb10d4f44f635ab24f5a9553250878ab10", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "4dc48f625065418476aef30e91df7dfb10d4f44f635ab24f5a9553250878ab10", kill_on_drop: false }`
[INFO] [stdout] 4dc48f625065418476aef30e91df7dfb10d4f44f635ab24f5a9553250878ab10
