[INFO] fetching crate librna-sys 0.3.0... [INFO] checking librna-sys-0.3.0 against master#350d0ef0ec0493e6d21cfb265cb8211a0e74d766 for pr-145342-1 [INFO] extracting crate librna-sys 0.3.0 into /workspace/builds/worker-5-tc1/source [INFO] started tweaking crates.io crate librna-sys 0.3.0 [INFO] removed 0 missing examples [INFO] finished tweaking crates.io crate librna-sys 0.3.0 [INFO] tweaked toml for crates.io crate librna-sys 0.3.0 written to /workspace/builds/worker-5-tc1/source/Cargo.toml [INFO] validating manifest of crates.io crate librna-sys 0.3.0 on toolchain 350d0ef0ec0493e6d21cfb265cb8211a0e74d766 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+350d0ef0ec0493e6d21cfb265cb8211a0e74d766" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate crates.io crate librna-sys 0.3.0 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" "+350d0ef0ec0493e6d21cfb265cb8211a0e74d766" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded pyo3-macros v0.22.2 [INFO] [stderr] Downloaded pyo3-macros-backend v0.22.2 [INFO] [stderr] Downloaded pyo3-build-config v0.22.2 [INFO] [stderr] Downloaded pyo3-ffi v0.22.2 [INFO] [stderr] Downloaded pyo3 v0.22.2 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-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@sha256:7ad1b28ee6f5f7f699f6cf7015098d6ccdd96d6f2d78dd06228f5b4c9faf309c" "/opt/rustwide/cargo-home/bin/cargo" "+350d0ef0ec0493e6d21cfb265cb8211a0e74d766" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] aef7d765118e8ce6d9e07a02d88955f4767393725b6d0db537325e7c9c79e78d [INFO] running `Command { std: "docker" "start" "-a" "aef7d765118e8ce6d9e07a02d88955f4767393725b6d0db537325e7c9c79e78d", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "aef7d765118e8ce6d9e07a02d88955f4767393725b6d0db537325e7c9c79e78d", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "aef7d765118e8ce6d9e07a02d88955f4767393725b6d0db537325e7c9c79e78d", kill_on_drop: false }` [INFO] [stdout] aef7d765118e8ce6d9e07a02d88955f4767393725b6d0db537325e7c9c79e78d [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-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@sha256:7ad1b28ee6f5f7f699f6cf7015098d6ccdd96d6f2d78dd06228f5b4c9faf309c" "/opt/rustwide/cargo-home/bin/cargo" "+350d0ef0ec0493e6d21cfb265cb8211a0e74d766" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 04d3061e3cd02889b2c67939e8b64d8cb226ae60ffacd8de221f6d7bbc0be37a [INFO] running `Command { std: "docker" "start" "-a" "04d3061e3cd02889b2c67939e8b64d8cb226ae60ffacd8de221f6d7bbc0be37a", kill_on_drop: false }` [INFO] [stderr] Compiling target-lexicon v0.12.16 [INFO] [stderr] Compiling proc-macro2 v1.0.86 [INFO] [stderr] Compiling once_cell v1.19.0 [INFO] [stderr] Compiling unicode-ident v1.0.6 [INFO] [stderr] Compiling libc v0.2.158 [INFO] [stderr] Compiling glob v0.3.0 [INFO] [stderr] Compiling memchr v2.5.0 [INFO] [stderr] Compiling cfg-if v1.0.0 [INFO] [stderr] Compiling prettyplease v0.2.22 [INFO] [stderr] Compiling log v0.4.17 [INFO] [stderr] Compiling minimal-lexical v0.2.1 [INFO] [stderr] Compiling bindgen v0.70.1 [INFO] [stderr] Compiling regex-syntax v0.6.25 [INFO] [stderr] Compiling either v1.6.1 [INFO] [stderr] Compiling bitflags v2.6.0 [INFO] [stderr] Compiling rustc-hash v1.1.0 [INFO] [stderr] Compiling libloading v0.7.3 [INFO] [stderr] Compiling itertools v0.13.0 [INFO] [stderr] Compiling autocfg v1.1.0 [INFO] [stderr] Compiling shlex v1.1.0 [INFO] [stderr] Compiling heck v0.5.0 [INFO] [stderr] Compiling pkg-config v0.3.30 [INFO] [stderr] Compiling indoc v2.0.5 [INFO] [stderr] Checking unindent v0.2.3 [INFO] [stderr] Compiling clang-sys v1.3.1 [INFO] [stderr] Compiling memoffset v0.9.1 [INFO] [stderr] Compiling quote v1.0.37 [INFO] [stderr] Compiling regex v1.5.5 [INFO] [stderr] Compiling nom v7.1.1 [INFO] [stderr] Compiling syn v2.0.77 [INFO] [stderr] Compiling pyo3-build-config v0.22.2 [INFO] [stderr] Compiling pyo3-macros-backend v0.22.2 [INFO] [stderr] Compiling pyo3-ffi v0.22.2 [INFO] [stderr] Compiling pyo3 v0.22.2 [INFO] [stderr] Compiling cexpr v0.6.0 [INFO] [stderr] Compiling pyo3-macros v0.22.2 [INFO] [stderr] Compiling librna-sys v0.3.0 (/opt/rustwide/workdir) [INFO] [stderr] warning: librna-sys@0.3.0: pkg_config failed ( [INFO] [stderr] warning: librna-sys@0.3.0: Consider setting LIBRNA_INCLUDE_DIR/LIBRNA_LIB_DIR instead. [INFO] [stderr] warning: librna-sys@0.3.0: environment variable not found. Using default LIBRNA_INCLUDE_DIR=/usr/include [INFO] [stderr] warning: librna-sys@0.3.0: environment variable not found. Using default LIBRNA_LIB_DIR=/usr/lib [INFO] [stderr] warning: librna-sys@0.3.0: libRNA.a not found! [INFO] [stderr] warning: librna-sys@0.3.0: Fallback mode for locally building libRNA.a is not yet implemented. [INFO] [stderr] error: failed to run custom build command for `librna-sys v0.3.0 (/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/librna-sys-2d2b790b0cd703f5/build-script-build` (exit status: 101) [INFO] [stderr] --- stdout [INFO] [stderr] cargo:rerun-if-changed=src/wrapper.h [INFO] [stderr] cargo:rerun-if-env-changed=LIBRNA_LIB_DIR [INFO] [stderr] cargo:rerun-if-env-changed=LIBRNA_INCLUDE_DIR [INFO] [stderr] cargo:rerun-if-env-changed=RNALIB2_NO_PKG_CONFIG [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG_x86_64-unknown-linux-gnu [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG_x86_64_unknown_linux_gnu [INFO] [stderr] cargo:rerun-if-env-changed=HOST_PKG_CONFIG [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG_PATH_x86_64-unknown-linux-gnu [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG_PATH_x86_64_unknown_linux_gnu [INFO] [stderr] cargo:rerun-if-env-changed=HOST_PKG_CONFIG_PATH [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG_PATH [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG_LIBDIR_x86_64-unknown-linux-gnu [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG_LIBDIR_x86_64_unknown_linux_gnu [INFO] [stderr] cargo:rerun-if-env-changed=HOST_PKG_CONFIG_LIBDIR [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG_LIBDIR [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG_SYSROOT_DIR_x86_64-unknown-linux-gnu [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG_SYSROOT_DIR_x86_64_unknown_linux_gnu [INFO] [stderr] cargo:rerun-if-env-changed=HOST_PKG_CONFIG_SYSROOT_DIR [INFO] [stderr] cargo:rerun-if-env-changed=PKG_CONFIG_SYSROOT_DIR [INFO] [stderr] cargo:warning=pkg_config failed ( [INFO] [stderr] pkg-config exited with status code 1 [INFO] [stderr] > PKG_CONFIG_ALLOW_SYSTEM_LIBS=1 PKG_CONFIG_ALLOW_SYSTEM_CFLAGS=1 pkg-config --static --libs --cflags RNAlib2 RNAlib2 >= 2.5.0 [INFO] [stderr] [INFO] [stderr] The system library `RNAlib2` required by crate `librna-sys` was not found. [INFO] [stderr] The file `RNAlib2.pc` needs to be installed and the PKG_CONFIG_PATH environment variable must contain its parent directory. [INFO] [stderr] The PKG_CONFIG_PATH environment variable is not set. [INFO] [stderr] [INFO] [stderr] HINT: if you have installed the library, try setting PKG_CONFIG_PATH to the directory containing `RNAlib2.pc`. [INFO] [stderr] ). [INFO] [stderr] cargo:warning=Consider setting LIBRNA_INCLUDE_DIR/LIBRNA_LIB_DIR instead. [INFO] [stderr] cargo:warning=environment variable not found. Using default LIBRNA_INCLUDE_DIR=/usr/include [INFO] [stderr] cargo:warning=environment variable not found. Using default LIBRNA_LIB_DIR=/usr/lib [INFO] [stderr] cargo:warning=libRNA.a not found! [INFO] [stderr] cargo:warning=Fallback mode for locally building libRNA.a is not yet implemented. [INFO] [stderr] cargo:rustc-link-lib=static=RNA [INFO] [stderr] cargo:rustc-link-lib=stdc++ [INFO] [stderr] cargo:rustc-link-lib=gsl [INFO] [stderr] cargo:rustc-link-lib=mpfr [INFO] [stderr] cargo:rustc-link-lib=gomp [INFO] [stderr] cargo:rustc-link-lib=gmp [INFO] [stderr] cargo:include=/usr/include [INFO] [stderr] cargo:include=/usr/include/ViennaRNA [INFO] [stderr] [INFO] [stderr] --- stderr [INFO] [stderr] src/wrapper.h:9:10: fatal error: 'ViennaRNA/2Dfold.h' file not found [INFO] [stderr] [INFO] [stderr] thread 'main' (996) panicked at src/build.rs:95:10: [INFO] [stderr] Unable to generate bindings: ClangDiagnostic("src/wrapper.h:9:10: fatal error: 'ViennaRNA/2Dfold.h' file not found\n") [INFO] [stderr] stack backtrace: [INFO] [stderr] 0: 0x56c883350ef2 - std::backtrace_rs::backtrace::libunwind::trace::h0fb8082ca5562a61 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/../../backtrace/src/backtrace/libunwind.rs:117:9 [INFO] [stderr] 1: 0x56c883350ef2 - std::backtrace_rs::backtrace::trace_unsynchronized::hfaa258994374a3cd [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/../../backtrace/src/backtrace/mod.rs:66:14 [INFO] [stderr] 2: 0x56c883350ef2 - std::sys::backtrace::_print_fmt::h11496fe34963a885 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/sys/backtrace.rs:66:9 [INFO] [stderr] 3: 0x56c883350ef2 - ::fmt::hff1a9408d012ee89 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/sys/backtrace.rs:39:26 [INFO] [stderr] 4: 0x56c8833744ef - core::fmt::rt::Argument::fmt::hf11195b61445f5d1 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/core/src/fmt/rt.rs:173:76 [INFO] [stderr] 5: 0x56c8833744ef - core::fmt::write::h2f1fc679f228cc52 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/core/src/fmt/mod.rs:1468:25 [INFO] [stderr] 6: 0x56c883341ea3 - std::io::default_write_fmt::hdd5e6d67566e664d [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/io/mod.rs:639:11 [INFO] [stderr] 7: 0x56c883341ea3 - std::io::Write::write_fmt::haa2231cbd9aebf95 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/io/mod.rs:1954:13 [INFO] [stderr] 8: 0x56c883350d42 - std::sys::backtrace::BacktraceLock::print::h28bfdbcac6d3828b [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/sys/backtrace.rs:42:9 [INFO] [stderr] 9: 0x56c88333e75c - std::panicking::default_hook::{{closure}}::h1f968e3a24b0e3b4 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/panicking.rs:301:27 [INFO] [stderr] 10: 0x56c88333e5a3 - std::panicking::default_hook::h43da101644971931 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/panicking.rs:328:9 [INFO] [stderr] 11: 0x56c88333ec9a - std::panicking::panic_with_hook::hb4e916c3e65eccec [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/panicking.rs:834:13 [INFO] [stderr] 12: 0x56c8833508ca - std::panicking::panic_handler::{{closure}}::hbff715d0475cf1bd [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/panicking.rs:707:13 [INFO] [stderr] 13: 0x56c883350829 - std::sys::backtrace::__rust_end_short_backtrace::hd6f43484e45a4955 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/sys/backtrace.rs:174:18 [INFO] [stderr] 14: 0x56c88333f2ed - __rustc[b29d3319de9a3146]::rust_begin_unwind [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/panicking.rs:698:5 [INFO] [stderr] 15: 0x56c88337c460 - core::panicking::panic_fmt::h5f8d281875be5ff1 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/core/src/panicking.rs:75:14 [INFO] [stderr] 16: 0x56c88337d9f6 - core::result::unwrap_failed::hbb243a6a8b53218d [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/core/src/result.rs:1852:5 [INFO] [stderr] 17: 0x56c882e41964 - core::result::Result::expect::h1d35f4e00e27dcd8 [INFO] [stderr] 18: 0x56c882e435a5 - build_script_build::main::hecf7d9cbf506badb [INFO] [stderr] 19: 0x56c882e41113 - core::ops::function::FnOnce::call_once::hd52dd23dee53709b [INFO] [stderr] 20: 0x56c882e467c6 - std::sys::backtrace::__rust_begin_short_backtrace::h0434a340bf7a0a0b [INFO] [stderr] 21: 0x56c882e458a9 - std::rt::lang_start::{{closure}}::h61fc3a216dadbfa4 [INFO] [stderr] 22: 0x56c883351500 - core::ops::function::impls:: for &F>::call_once::h32dc2b2f49a48277 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/core/src/ops/function.rs:290:21 [INFO] [stderr] 23: 0x56c883351500 - std::panicking::catch_unwind::do_call::h3353546a38525559 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/panicking.rs:590:40 [INFO] [stderr] 24: 0x56c883351500 - std::panicking::catch_unwind::h57fb70202d1ae368 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/panicking.rs:553:19 [INFO] [stderr] 25: 0x56c883351500 - std::panic::catch_unwind::h4b724a52bb5803b4 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/panic.rs:359:14 [INFO] [stderr] 26: 0x56c883351500 - std::rt::lang_start_internal::{{closure}}::h3724b3072c80532a [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/rt.rs:175:24 [INFO] [stderr] 27: 0x56c883351500 - std::panicking::catch_unwind::do_call::h4f6e90f858bd1c3f [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/panicking.rs:590:40 [INFO] [stderr] 28: 0x56c883351500 - std::panicking::catch_unwind::h81c085c0d350991c [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/panicking.rs:553:19 [INFO] [stderr] 29: 0x56c883351500 - std::panic::catch_unwind::h289049af1176d82a [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/panic.rs:359:14 [INFO] [stderr] 30: 0x56c883351500 - std::rt::lang_start_internal::h3c37ebeb799b11e1 [INFO] [stderr] at /rustc/350d0ef0ec0493e6d21cfb265cb8211a0e74d766/library/std/src/rt.rs:171:5 [INFO] [stderr] 31: 0x56c882e45891 - std::rt::lang_start::h9aa742aeb62010ce [INFO] [stderr] 32: 0x56c882e467e5 - main [INFO] [stderr] 33: 0x7599a933a1ca - [INFO] [stderr] 34: 0x7599a933a28b - __libc_start_main [INFO] [stderr] 35: 0x56c882e40cd5 - _start [INFO] [stderr] 36: 0x0 - [INFO] running `Command { std: "docker" "inspect" "04d3061e3cd02889b2c67939e8b64d8cb226ae60ffacd8de221f6d7bbc0be37a", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "04d3061e3cd02889b2c67939e8b64d8cb226ae60ffacd8de221f6d7bbc0be37a", kill_on_drop: false }` [INFO] [stdout] 04d3061e3cd02889b2c67939e8b64d8cb226ae60ffacd8de221f6d7bbc0be37a