[INFO] fetching crate rdkit-rs 0.1.0... [INFO] testing rdkit-rs-0.1.0 against master#562dee4820c458d823175268e41601d4c060588a for pr-154210-2 [INFO] extracting crate rdkit-rs 0.1.0 into /workspace/builds/worker-0-tc1/source [INFO] started tweaking crates.io crate rdkit-rs 0.1.0 [INFO] finished tweaking crates.io crate rdkit-rs 0.1.0 [INFO] tweaked toml for crates.io crate rdkit-rs 0.1.0 written to /workspace/builds/worker-0-tc1/source/Cargo.toml [INFO] validating manifest of crates.io crate rdkit-rs 0.1.0 on toolchain 562dee4820c458d823175268e41601d4c060588a [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+562dee4820c458d823175268e41601d4c060588a" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+562dee4820c458d823175268e41601d4c060588a" "generate-lockfile" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Updating crates.io index [INFO] [stderr] Locking 33 packages to latest compatible versions [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+562dee4820c458d823175268e41601d4c060588a" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded cxxbridge-flags v1.0.194 [INFO] [stderr] Downloaded cxxbridge-macro v1.0.194 [INFO] [stderr] Downloaded clap v4.6.1 [INFO] [stderr] Downloaded cxx-build v1.0.194 [INFO] [stderr] Downloaded cxxbridge-cmd v1.0.194 [INFO] [stderr] Downloaded cxx v1.0.194 [INFO] [stderr] Downloaded rdkit-ffi v0.1.0+rdkit-2022-09-1-pre [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+562dee4820c458d823175268e41601d4c060588a" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 11de1c646f4d64430cc29a36326a7eee5eb62c412d06ad1297ddb695f6815f08 [INFO] running `Command { std: "docker" "start" "-a" "11de1c646f4d64430cc29a36326a7eee5eb62c412d06ad1297ddb695f6815f08", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "11de1c646f4d64430cc29a36326a7eee5eb62c412d06ad1297ddb695f6815f08", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "11de1c646f4d64430cc29a36326a7eee5eb62c412d06ad1297ddb695f6815f08", kill_on_drop: false }` [INFO] [stdout] 11de1c646f4d64430cc29a36326a7eee5eb62c412d06ad1297ddb695f6815f08 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+562dee4820c458d823175268e41601d4c060588a" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 4701b4b2c744375734e019db378f788d38aa9fd55961dce0ff7d2ffc7f742fd5 [INFO] running `Command { std: "docker" "start" "-a" "4701b4b2c744375734e019db378f788d38aa9fd55961dce0ff7d2ffc7f742fd5", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro2 v1.0.106 [INFO] [stderr] Compiling cxxbridge-flags v1.0.194 [INFO] [stderr] Compiling hashbrown v0.17.0 [INFO] [stderr] Compiling foldhash v0.2.0 [INFO] [stderr] Compiling link-cplusplus v1.0.12 [INFO] [stderr] Compiling cxx v1.0.194 [INFO] [stderr] Compiling quote v1.0.45 [INFO] [stderr] Compiling syn v2.0.117 [INFO] [stderr] Compiling indexmap v2.14.0 [INFO] [stderr] Compiling cxxbridge-macro v1.0.194 [INFO] [stderr] Compiling rdkit-ffi v0.1.0+rdkit-2022-09-1-pre [INFO] [stderr] Compiling rdkit-rs v0.1.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 14.73s [INFO] running `Command { std: "docker" "inspect" "4701b4b2c744375734e019db378f788d38aa9fd55961dce0ff7d2ffc7f742fd5", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "4701b4b2c744375734e019db378f788d38aa9fd55961dce0ff7d2ffc7f742fd5", kill_on_drop: false }` [INFO] [stdout] 4701b4b2c744375734e019db378f788d38aa9fd55961dce0ff7d2ffc7f742fd5 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+562dee4820c458d823175268e41601d4c060588a" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 68600cfeceb423ca386cf0d47d35111a2239eab95acf90374849699566dcad6a [INFO] running `Command { std: "docker" "start" "-a" "68600cfeceb423ca386cf0d47d35111a2239eab95acf90374849699566dcad6a", kill_on_drop: false }` [INFO] [stderr] Compiling rdkit-rs v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] error: linking with `cc` failed: exit status: 1 [INFO] [stdout] | [INFO] [stdout] = note: "cc" "-m64" "/opt/rustwide/target/debug/deps/rustc8v5Gkv/symbols.o" "<2 object files omitted>" "-Wl,--as-needed" "-Wl,-Bstatic" "/lib/rustlib/x86_64-unknown-linux-gnu/lib/{libtest-*,libgetopts-*,librustc_std_workspace_std-*}.rlib" "/opt/rustwide/target/debug/deps/{librdkit_ffi-e33652e678b9c223,libcxx-7908659e16351a54,libfoldhash-40583849f0199317,liblink_cplusplus-5dadb151f8a39b40}.rlib" "/lib/rustlib/x86_64-unknown-linux-gnu/lib/{libstd-*,libpanic_unwind-*,libobject-*,libmemchr-*,libaddr2line-*,libgimli-*,libcfg_if-*,librustc_demangle-*,libstd_detect-*,libhashbrown-*,librustc_std_workspace_alloc-*,libminiz_oxide-*,libadler2-*,libunwind-*,liblibc-*,librustc_std_workspace_core-*,liballoc-*,libcore-*,libcompiler_builtins-*}.rlib" "-Wl,-Bdynamic" "-lstdc++" "-lgcc_s" "-lutil" "-lrt" "-lpthread" "-lm" "-ldl" "-lc" "-L" "/opt/rustwide/target/debug/deps/rustc8v5Gkv/raw-dylibs" "-B/lib/rustlib/x86_64-unknown-linux-gnu/bin/gcc-ld" "-fuse-ld=lld" "-Wl,--eh-frame-hdr" "-Wl,-z,noexecstack" "-L" "/opt/rustwide/target/debug/build/cxx-c897f757daa0a129/out" "-L" "/opt/rustwide/target/debug/build/link-cplusplus-ce48995cf715f332/out" "-L" "/lib/rustlib/x86_64-unknown-linux-gnu/lib" "-o" "/opt/rustwide/target/debug/deps/rdkit_rs-448f570f0b5e6b8e" "-Wl,--gc-sections" "-pie" "-Wl,-z,relro,-z,now" "-nodefaultlibs" [INFO] [stdout] = note: some arguments are omitted. use `--verbose` to show all linker arguments [INFO] [stdout] = note: rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$FMCS_find_mcs [INFO] [stdout] >>> referenced by lib.rs:27 (src/lib.rs:27) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::FMCS_find_mcs) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$ROMolPtrVec_new [INFO] [stdout] >>> referenced by lib.rs:15 (src/lib.rs:15) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::ROMolPtrVec_new) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$MCSResult_num_atoms [INFO] [stdout] >>> referenced by lib.rs:28 (src/lib.rs:28) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::MCSResult_num_atoms) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$MCSResult_num_bonds [INFO] [stdout] >>> referenced by lib.rs:29 (src/lib.rs:29) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::MCSResult_num_bonds) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$RWMol_get_num_atoms [INFO] [stdout] >>> referenced by lib.rs:11 (src/lib.rs:11) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::RWMol_get_num_atoms) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$RWMol_get_num_bonds [INFO] [stdout] >>> referenced by lib.rs:13 (src/lib.rs:13) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::RWMol_get_num_bonds) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$SmilesParse_smi_to_mol [INFO] [stdout] >>> referenced by lib.rs:7 (src/lib.rs:7) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::SmilesParse_smi_to_mol) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$MCSResult_smarts_string [INFO] [stdout] >>> referenced by lib.rs:30 (src/lib.rs:30) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::MCSResult_smarts_string) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$MorganFP_get_fingerprint [INFO] [stdout] >>> referenced by lib.rs:22 (src/lib.rs:22) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::MorganFP_get_fingerprint) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$ROMolPtrVec_emplace_back [INFO] [stdout] >>> referenced by lib.rs:16 (src/lib.rs:16) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::ROMolPtrVec_emplace_back) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$RWMol_get_num_heavy_atoms [INFO] [stdout] >>> referenced by lib.rs:12 (src/lib.rs:12) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::RWMol_get_num_heavy_atoms) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: RDKit$cxxbridge1$194$MorganFP_get_nonzero_elements_size [INFO] [stdout] >>> referenced by lib.rs:23 (src/lib.rs:23) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(rdkit_ffi::rd::MorganFP_get_nonzero_elements_size) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: cxxbridge1$shared_ptr$RDKit$RWMol$drop [INFO] [stdout] >>> referenced by lib.rs:7 (src/lib.rs:7) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(::__drop) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: cxxbridge1$unique_ptr$RDKit$ROMolPtrVec$raw [INFO] [stdout] >>> referenced by lib.rs:15 (src/lib.rs:15) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(::__raw) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: cxxbridge1$unique_ptr$RDKit$ROMolPtrVec$drop [INFO] [stdout] >>> referenced by lib.rs:15 (src/lib.rs:15) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(::__drop) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: cxxbridge1$unique_ptr$RDKit$MorganFingerprint$raw [INFO] [stdout] >>> referenced by lib.rs:22 (src/lib.rs:22) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(::__raw) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: cxxbridge1$unique_ptr$RDKit$MorganFingerprint$drop [INFO] [stdout] >>> referenced by lib.rs:22 (src/lib.rs:22) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(::__drop) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: cxxbridge1$unique_ptr$RDKit$MCSResult$raw [INFO] [stdout] >>> referenced by lib.rs:27 (src/lib.rs:27) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(::__raw) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] [INFO] [stdout] rust-lld: error: undefined symbol: cxxbridge1$unique_ptr$RDKit$MCSResult$drop [INFO] [stdout] >>> referenced by lib.rs:27 (src/lib.rs:27) [INFO] [stdout] >>> rdkit_ffi-e33652e678b9c223.rdkit_ffi.83f285742177f306-cgu.0.rcgu.o:(::__drop) in archive /opt/rustwide/target/debug/deps/librdkit_ffi-e33652e678b9c223.rlib [INFO] [stdout] collect2: error: ld returned 1 exit status [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] error: could not compile `rdkit-rs` (lib test) due to 1 previous error [INFO] running `Command { std: "docker" "inspect" "68600cfeceb423ca386cf0d47d35111a2239eab95acf90374849699566dcad6a", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "68600cfeceb423ca386cf0d47d35111a2239eab95acf90374849699566dcad6a", kill_on_drop: false }` [INFO] [stdout] 68600cfeceb423ca386cf0d47d35111a2239eab95acf90374849699566dcad6a