[INFO] cloning repository https://github.com/manudol/RNAligner
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/manudol/RNAligner" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fmanudol%2FRNAligner", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fmanudol%2FRNAligner'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 90f3f3ca8c164eed9a146311359c547a01e94c96
[INFO] testing manudol/RNAligner against beta-2026-04-21 for beta-1.96-2
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fmanudol%2FRNAligner" "/workspace/builds/worker-5-tc2/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-5-tc2/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/manudol/RNAligner
[INFO] finished tweaking git repo https://github.com/manudol/RNAligner
[INFO] tweaked toml for git repo https://github.com/manudol/RNAligner written to /workspace/builds/worker-5-tc2/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/manudol/RNAligner on toolchain beta-2026-04-21
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+beta-2026-04-21" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/manudol/RNAligner 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" "+beta-2026-04-21" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2026-04-21" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 5f19ae07d560e4275eaaf4c8c8d261358fad57afb061a7a97276dbc51c847836
[INFO] running `Command { std: "docker" "start" "-a" "5f19ae07d560e4275eaaf4c8c8d261358fad57afb061a7a97276dbc51c847836", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "5f19ae07d560e4275eaaf4c8c8d261358fad57afb061a7a97276dbc51c847836", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "5f19ae07d560e4275eaaf4c8c8d261358fad57afb061a7a97276dbc51c847836", kill_on_drop: false }`
[INFO] [stdout] 5f19ae07d560e4275eaaf4c8c8d261358fad57afb061a7a97276dbc51c847836
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2026-04-21" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 250e0ab4154139385e889abf754b149b869fc99f010f6031bb56d61a365dda3a
[INFO] running `Command { std: "docker" "start" "-a" "250e0ab4154139385e889abf754b149b869fc99f010f6031bb56d61a365dda3a", kill_on_drop: false }`
[INFO] [stderr]    Compiling find-msvc-tools v0.1.4
[INFO] [stderr]    Compiling either v1.15.0
[INFO] [stderr]    Compiling cc v1.2.43
[INFO] [stderr]    Compiling rayon v1.11.0
[INFO] [stderr]    Compiling rnaligner v0.1.0 (/opt/rustwide/workdir)
[INFO] [stderr] warning: rnaligner@0.1.0: c_code/viennarna.c:6:10: fatal error: ViennaRNA/utils/basic.h: No such file or directory
[INFO] [stderr] warning: rnaligner@0.1.0:     6 | #include <ViennaRNA/utils/basic.h>
[INFO] [stderr] warning: rnaligner@0.1.0:       |          ^~~~~~~~~~~~~~~~~~~~~~~~~
[INFO] [stderr] warning: rnaligner@0.1.0: compilation terminated.
[INFO] [stderr] error: failed to run custom build command for `rnaligner v0.1.0 (/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/rnaligner-01061a8ac8b06f22/build-script-build` (exit status: 1)
[INFO] [stderr]   --- stdout
[INFO] [stderr]   OUT_DIR = Some(/opt/rustwide/target/debug/build/rnaligner-4a7f921a1c8cbbe7/out)
[INFO] [stderr]   OPT_LEVEL = Some(0)
[INFO] [stderr]   TARGET = Some(x86_64-unknown-linux-gnu)
[INFO] [stderr]   CARGO_ENCODED_RUSTFLAGS = Some(--cap-lints=warn)
[INFO] [stderr]   HOST = Some(x86_64-unknown-linux-gnu)
[INFO] [stderr]   cargo:rerun-if-env-changed=CC_x86_64-unknown-linux-gnu
[INFO] [stderr]   CC_x86_64-unknown-linux-gnu = None
[INFO] [stderr]   cargo:rerun-if-env-changed=CC_x86_64_unknown_linux_gnu
[INFO] [stderr]   CC_x86_64_unknown_linux_gnu = None
[INFO] [stderr]   cargo:rerun-if-env-changed=HOST_CC
[INFO] [stderr]   HOST_CC = None
[INFO] [stderr]   cargo:rerun-if-env-changed=CC
[INFO] [stderr]   CC = None
[INFO] [stderr]   cargo:rerun-if-env-changed=CC_ENABLE_DEBUG_OUTPUT
[INFO] [stderr]   RUSTC_WRAPPER = None
[INFO] [stderr]   cargo:rerun-if-env-changed=CRATE_CC_NO_DEFAULTS
[INFO] [stderr]   CRATE_CC_NO_DEFAULTS = None
[INFO] [stderr]   DEBUG = Some(true)
[INFO] [stderr]   CARGO_CFG_TARGET_FEATURE = Some(fxsr,sse,sse2)
[INFO] [stderr]   cargo:rerun-if-env-changed=CFLAGS
[INFO] [stderr]   CFLAGS = None
[INFO] [stderr]   cargo:rerun-if-env-changed=HOST_CFLAGS
[INFO] [stderr]   HOST_CFLAGS = None
[INFO] [stderr]   cargo:rerun-if-env-changed=CFLAGS_x86_64_unknown_linux_gnu
[INFO] [stderr]   CFLAGS_x86_64_unknown_linux_gnu = None
[INFO] [stderr]   cargo:rerun-if-env-changed=CFLAGS_x86_64-unknown-linux-gnu
[INFO] [stderr]   CFLAGS_x86_64-unknown-linux-gnu = None
[INFO] [stderr]   cargo:warning=c_code/viennarna.c:6:10: fatal error: ViennaRNA/utils/basic.h: No such file or directory
[INFO] [stderr]   cargo:warning=    6 | #include <ViennaRNA/utils/basic.h>
[INFO] [stderr]   cargo:warning=      |          ^~~~~~~~~~~~~~~~~~~~~~~~~
[INFO] [stderr]   cargo:warning=compilation terminated.
[INFO] [stderr] 
[INFO] [stderr]   --- stderr
[INFO] [stderr] 
[INFO] [stderr] 
[INFO] [stderr]   error occurred in cc-rs: command did not execute successfully (status code exit status: 1): LC_ALL="C" "cc" "-O0" "-ffunction-sections" "-fdata-sections" "-fPIC" "-gdwarf-4" "-fno-omit-frame-pointer" "-m64" "-I" "/opt/homebrew/include" "-Wall" "-Wextra" "-o" "/opt/rustwide/target/debug/build/rnaligner-4a7f921a1c8cbbe7/out/9d119e8d245f8616-viennarna.o" "-c" "c_code/viennarna.c"
[INFO] [stderr] 
[INFO] [stderr] 
[INFO] [stderr] warning: build failed, waiting for other jobs to finish...
[INFO] running `Command { std: "docker" "inspect" "250e0ab4154139385e889abf754b149b869fc99f010f6031bb56d61a365dda3a", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "250e0ab4154139385e889abf754b149b869fc99f010f6031bb56d61a365dda3a", kill_on_drop: false }`
[INFO] [stdout] 250e0ab4154139385e889abf754b149b869fc99f010f6031bb56d61a365dda3a
