[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] 3867ac8ffeced689656565d24ed4a95ca7791e9e
[INFO] checking COMBINE-lab/piscem against master#f8463896a9b36a04899c013bd8825a7fd29dd7a4 for pr-151920
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FCOMBINE-lab%2Fpiscem" "/workspace/builds/worker-3-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-3-tc1/source'...
[INFO] [stderr] done.
[INFO] removed /workspace/builds/worker-3-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-3-tc1/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/COMBINE-lab/piscem on toolchain f8463896a9b36a04899c013bd8825a7fd29dd7a4
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+f8463896a9b36a04899c013bd8825a7fd29dd7a4" "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" "+f8463896a9b36a04899c013bd8825a7fd29dd7a4" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded sha2-asm v0.6.4
[INFO] [stderr]   Downloaded path-tools v0.1.0
[INFO] [stderr]   Downloaded prepare_fasta v0.2.0
[INFO] [stderr]   Downloaded buffer-redux v1.0.2
[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-3-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-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@sha256:61361fe0aef631f17e9d025a70c5a647956f8c671dd02950a60ad3f5cc5526d7" "/opt/rustwide/cargo-home/bin/cargo" "+f8463896a9b36a04899c013bd8825a7fd29dd7a4" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] e9fc7c210d10f367187e7c8764c84206d8d4611a6f35da048e49b515f176f700
[INFO] running `Command { std: "docker" "start" "-a" "e9fc7c210d10f367187e7c8764c84206d8d4611a6f35da048e49b515f176f700", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "e9fc7c210d10f367187e7c8764c84206d8d4611a6f35da048e49b515f176f700", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "e9fc7c210d10f367187e7c8764c84206d8d4611a6f35da048e49b515f176f700", kill_on_drop: false }`
[INFO] [stdout] e9fc7c210d10f367187e7c8764c84206d8d4611a6f35da048e49b515f176f700
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-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@sha256:61361fe0aef631f17e9d025a70c5a647956f8c671dd02950a60ad3f5cc5526d7" "/opt/rustwide/cargo-home/bin/cargo" "+f8463896a9b36a04899c013bd8825a7fd29dd7a4" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 3f051f93278e19b7f32ed8accc856ab3b3923c8c68a0c03cd0aa68f24258c359
[INFO] running `Command { std: "docker" "start" "-a" "3f051f93278e19b7f32ed8accc856ab3b3923c8c68a0c03cd0aa68f24258c359", kill_on_drop: false }`
[INFO] [stderr]    Compiling rustix v1.1.3
[INFO] [stderr]    Compiling zstd-safe v7.2.4
[INFO] [stderr]    Compiling zstd-sys v2.0.15+zstd.1.5.7
[INFO] [stderr]    Compiling syn v2.0.114
[INFO] [stderr]    Compiling liblzma-sys v0.3.13
[INFO] [stderr]    Compiling bzip2-sys v0.1.13+1.0.8
[INFO] [stderr]    Compiling sha2-asm v0.6.4
[INFO] [stderr]    Compiling zmij v1.0.17
[INFO] [stderr]     Checking tracing-core v0.1.36
[INFO] [stderr]    Compiling serde_core v1.0.228
[INFO] [stderr]     Checking regex-automata v0.4.13
[INFO] [stderr]     Checking flate2 v1.1.2
[INFO] [stderr]     Checking buffer-redux v1.0.2
[INFO] [stderr]     Checking bzip2 v0.4.4
[INFO] [stderr]     Checking terminal_size v0.4.3
[INFO] [stderr]     Checking clap_builder v4.5.56
[INFO] [stderr]     Checking bytecount v0.6.9
[INFO] [stderr]     Checking tracing-log v0.2.0
[INFO] [stderr]     Checking sha2 v0.10.9
[INFO] [stderr]    Compiling piscem v0.14.6 (/opt/rustwide/workdir)
[INFO] [stderr]     Checking thread_local v1.1.9
[INFO] [stderr]     Checking path-tools v0.1.0
[INFO] [stderr]     Checking nu-ansi-term v0.50.3
[INFO] [stderr] error: failed to run custom build command for `piscem v0.14.6 (/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-1bcc9eac37c902d0/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] 
[INFO] [stderr]   --- stderr
[INFO] [stderr]   running: cd "/opt/rustwide/target/debug/build/piscem-cf8d0af3afa1e30a/out/build" && CMAKE_PREFIX_PATH="" LC_ALL="C" "cmake" "/opt/rustwide/workdir/piscem-cpp" "-B" "/opt/rustwide/target/debug/build/piscem-cf8d0af3afa1e30a/out/build" "-DCMAKE_INSTALL_PREFIX=/opt/rustwide/target/debug/build/piscem-cf8d0af3afa1e30a/out" "-DCMAKE_C_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64 -w" "-DCMAKE_C_COMPILER=/usr/bin/cc" "-DCMAKE_CXX_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64 -w" "-DCMAKE_CXX_COMPILER=/usr/bin/c++" "-DCMAKE_ASM_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64 -w" "-DCMAKE_ASM_COMPILER=/usr/bin/cc" "-DCMAKE_BUILD_TYPE=Debug"
[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' (449) panicked at /opt/rustwide/cargo-home/registry/src/index.crates.io-1949cf8c6b5b557f/cmake-0.1.57/src/lib.rs:1132:5:
[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:     0x6075bba9916a - std[d6797bd5c5b87734]::backtrace_rs::backtrace::libunwind::trace
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/../../backtrace/src/backtrace/libunwind.rs:117:9
[INFO] [stderr]      1:     0x6075bba9916a - std[d6797bd5c5b87734]::backtrace_rs::backtrace::trace_unsynchronized::<std[d6797bd5c5b87734]::sys::backtrace::_print_fmt::{closure#1}>
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/../../backtrace/src/backtrace/mod.rs:66:14
[INFO] [stderr]      2:     0x6075bba9916a - std[d6797bd5c5b87734]::sys::backtrace::_print_fmt
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/sys/backtrace.rs:74:9
[INFO] [stderr]      3:     0x6075bba9916a - <<std[d6797bd5c5b87734]::sys::backtrace::BacktraceLock>::print::DisplayBacktrace as core[41b2f257aac66749]::fmt::Display>::fmt
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/sys/backtrace.rs:44:26
[INFO] [stderr]      4:     0x6075bbaad39a - <core[41b2f257aac66749]::fmt::rt::Argument>::fmt
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/core/src/fmt/rt.rs:152:76
[INFO] [stderr]      5:     0x6075bbaad39a - core[41b2f257aac66749]::fmt::write
[INFO] [stderr]      6:     0x6075bba9f2e2 - std[d6797bd5c5b87734]::io::default_write_fmt::<std[d6797bd5c5b87734]::sys::stdio::unix::Stderr>
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/io/mod.rs:639:11
[INFO] [stderr]      7:     0x6075bba9f2e2 - <std[d6797bd5c5b87734]::sys::stdio::unix::Stderr as std[d6797bd5c5b87734]::io::Write>::write_fmt
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/io/mod.rs:1994:13
[INFO] [stderr]      8:     0x6075bba7ac4f - <std[d6797bd5c5b87734]::sys::backtrace::BacktraceLock>::print
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/sys/backtrace.rs:47:9
[INFO] [stderr]      9:     0x6075bba7ac4f - std[d6797bd5c5b87734]::panicking::default_hook::{closure#0}
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/panicking.rs:292:27
[INFO] [stderr]     10:     0x6075bba93ef1 - std[d6797bd5c5b87734]::panicking::default_hook
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/panicking.rs:319:9
[INFO] [stderr]     11:     0x6075bba940ab - std[d6797bd5c5b87734]::panicking::panic_with_hook
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/panicking.rs:825:13
[INFO] [stderr]     12:     0x6075bba7ad08 - std[d6797bd5c5b87734]::panicking::panic_handler::{closure#0}
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/panicking.rs:698:13
[INFO] [stderr]     13:     0x6075bba72619 - std[d6797bd5c5b87734]::sys::backtrace::__rust_end_short_backtrace::<std[d6797bd5c5b87734]::panicking::panic_handler::{closure#0}, !>
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/sys/backtrace.rs:182:18
[INFO] [stderr]     14:     0x6075bba7b66d - __rustc[54dc6978d45d35b1]::rust_begin_unwind
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/panicking.rs:689:5
[INFO] [stderr]     15:     0x6075bbaadaac - core[41b2f257aac66749]::panicking::panic_fmt
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/core/src/panicking.rs:80:14
[INFO] [stderr]     16:     0x6075bb9f9ac7 - cmake[c0eac004c0b5827e]::fail
[INFO] [stderr]     17:     0x6075bb9f9753 - cmake[c0eac004c0b5827e]::run
[INFO] [stderr]     18:     0x6075bb9ff0c8 - <cmake[c0eac004c0b5827e]::Config>::build
[INFO] [stderr]     19:     0x6075bb9e8c05 - build_script_build[11314679d653dff6]::main
[INFO] [stderr]     20:     0x6075bb9eb583 - <fn() as core[41b2f257aac66749]::ops::function::FnOnce<()>>::call_once
[INFO] [stderr]     21:     0x6075bb9e7b36 - std[d6797bd5c5b87734]::sys::backtrace::__rust_begin_short_backtrace::<fn(), ()>
[INFO] [stderr]     22:     0x6075bb9e7b49 - std[d6797bd5c5b87734]::rt::lang_start::<()>::{closure#0}
[INFO] [stderr]     23:     0x6075bba92ef6 - <&dyn core[41b2f257aac66749]::ops::function::Fn<(), Output = i32> + core[41b2f257aac66749]::panic::unwind_safe::RefUnwindSafe + core[41b2f257aac66749]::marker::Sync as core[41b2f257aac66749]::ops::function::FnOnce<()>>::call_once
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/core/src/ops/function.rs:287:21
[INFO] [stderr]     24:     0x6075bba92ef6 - std[d6797bd5c5b87734]::panicking::catch_unwind::do_call::<&dyn core[41b2f257aac66749]::ops::function::Fn<(), Output = i32> + core[41b2f257aac66749]::panic::unwind_safe::RefUnwindSafe + core[41b2f257aac66749]::marker::Sync, i32>
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/panicking.rs:581:40
[INFO] [stderr]     25:     0x6075bba92ef6 - std[d6797bd5c5b87734]::panicking::catch_unwind::<i32, &dyn core[41b2f257aac66749]::ops::function::Fn<(), Output = i32> + core[41b2f257aac66749]::panic::unwind_safe::RefUnwindSafe + core[41b2f257aac66749]::marker::Sync>
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/panicking.rs:544:19
[INFO] [stderr]     26:     0x6075bba92ef6 - std[d6797bd5c5b87734]::panic::catch_unwind::<&dyn core[41b2f257aac66749]::ops::function::Fn<(), Output = i32> + core[41b2f257aac66749]::panic::unwind_safe::RefUnwindSafe + core[41b2f257aac66749]::marker::Sync, i32>
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/panic.rs:359:14
[INFO] [stderr]     27:     0x6075bba92ef6 - std[d6797bd5c5b87734]::rt::lang_start_internal::{closure#0}
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/rt.rs:175:24
[INFO] [stderr]     28:     0x6075bba92ef6 - std[d6797bd5c5b87734]::panicking::catch_unwind::do_call::<std[d6797bd5c5b87734]::rt::lang_start_internal::{closure#0}, isize>
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/panicking.rs:581:40
[INFO] [stderr]     29:     0x6075bba92ef6 - std[d6797bd5c5b87734]::panicking::catch_unwind::<isize, std[d6797bd5c5b87734]::rt::lang_start_internal::{closure#0}>
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/panicking.rs:544:19
[INFO] [stderr]     30:     0x6075bba92ef6 - std[d6797bd5c5b87734]::panic::catch_unwind::<std[d6797bd5c5b87734]::rt::lang_start_internal::{closure#0}, isize>
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/panic.rs:359:14
[INFO] [stderr]     31:     0x6075bba92ef6 - std[d6797bd5c5b87734]::rt::lang_start_internal
[INFO] [stderr]                                  at /rustc/f8463896a9b36a04899c013bd8825a7fd29dd7a4/library/std/src/rt.rs:171:5
[INFO] [stderr]     32:     0x6075bb9e7b21 - std[d6797bd5c5b87734]::rt::lang_start::<()>
[INFO] [stderr]     33:     0x6075bb9eb635 - main
[INFO] [stderr]     34:     0x7e46a09f91ca - <unknown>
[INFO] [stderr]     35:     0x7e46a09f928b - __libc_start_main
[INFO] [stderr]     36:     0x6075bb9e6905 - _start
[INFO] [stderr]     37:                0x0 - <unknown>
[INFO] [stderr] warning: build failed, waiting for other jobs to finish...
[INFO] running `Command { std: "docker" "inspect" "3f051f93278e19b7f32ed8accc856ab3b3923c8c68a0c03cd0aa68f24258c359", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "3f051f93278e19b7f32ed8accc856ab3b3923c8c68a0c03cd0aa68f24258c359", kill_on_drop: false }`
[INFO] [stdout] 3f051f93278e19b7f32ed8accc856ab3b3923c8c68a0c03cd0aa68f24258c359
