[INFO] cloning repository https://github.com/rustcodepro/beechem
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/rustcodepro/beechem" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Frustcodepro%2Fbeechem", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Frustcodepro%2Fbeechem'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 5c5e990758de8a01b7effcdcdc7e3d10d628e8b4
[INFO] checking rustcodepro/beechem against try#b10dae361a61486cfbdcd3aae3877ee17e00d192 for pr-153912
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Frustcodepro%2Fbeechem" "/workspace/builds/worker-7-tc2/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-7-tc2/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/rustcodepro/beechem
[INFO] finished tweaking git repo https://github.com/rustcodepro/beechem
[INFO] tweaked toml for git repo https://github.com/rustcodepro/beechem written to /workspace/builds/worker-7-tc2/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/rustcodepro/beechem on toolchain b10dae361a61486cfbdcd3aae3877ee17e00d192
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+b10dae361a61486cfbdcd3aae3877ee17e00d192" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/rustcodepro/beechem 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" "+b10dae361a61486cfbdcd3aae3877ee17e00d192" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded cxxbridge-flags v1.0.194
[INFO] [stderr]   Downloaded scratch v1.0.9
[INFO] [stderr]   Downloaded link-cplusplus v1.0.12
[INFO] [stderr]   Downloaded codespan-reporting v0.13.1
[INFO] [stderr]   Downloaded ndarray-csv v0.5.1
[INFO] [stderr]   Downloaded figlet-rs v0.1.5
[INFO] [stderr]   Downloaded approx v0.4.0
[INFO] [stderr]   Downloaded linfa-linear v0.7.1
[INFO] [stderr]   Downloaded slog-json v2.6.1
[INFO] [stderr]   Downloaded linfa-elasticnet v0.7.1
[INFO] [stderr]   Downloaded argmin-math v0.3.0
[INFO] [stderr]   Downloaded linfa-datasets v0.6.1
[INFO] [stderr]   Downloaded slog v2.8.2
[INFO] [stderr]   Downloaded argmin v0.4.7
[INFO] [stderr]   Downloaded linfa v0.7.1
[INFO] [stderr]   Downloaded cxx v1.0.194
[INFO] [stderr]   Downloaded sprs v0.11.1
[INFO] [stderr]   Downloaded cxxbridge-cmd v1.0.194
[INFO] [stderr]   Downloaded argmin v0.9.0
[INFO] [stderr]   Downloaded linfa v0.6.1
[INFO] [stderr]   Downloaded cxxbridge-macro v1.0.194
[INFO] [stderr]   Downloaded cxx-build v1.0.194
[INFO] [stderr]   Downloaded smartcore v0.4.9
[INFO] [stderr]   Downloaded term v1.2.1
[INFO] [stderr]   Downloaded linfa-linalg v0.1.0
[INFO] [stderr]   Downloaded linfa-linear v0.6.1
[INFO] [stderr]   Downloaded qsar v0.0.2
[INFO] [stderr]   Downloaded rdkit v0.4.12
[INFO] [stderr]   Downloaded slog-async v2.8.0
[INFO] [stderr]   Downloaded slog-term v2.9.2
[INFO] [stderr]   Downloaded rdkit-sys v0.4.12
[INFO] [stderr]   Downloaded ndarray-rand v0.14.0
[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-7-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-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" "+b10dae361a61486cfbdcd3aae3877ee17e00d192" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] d7a38c0d5aec138315650460b06c4a779ce948335e06dabf60419cafa5081ba0
[INFO] running `Command { std: "docker" "start" "-a" "d7a38c0d5aec138315650460b06c4a779ce948335e06dabf60419cafa5081ba0", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "d7a38c0d5aec138315650460b06c4a779ce948335e06dabf60419cafa5081ba0", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "d7a38c0d5aec138315650460b06c4a779ce948335e06dabf60419cafa5081ba0", kill_on_drop: false }`
[INFO] [stdout] d7a38c0d5aec138315650460b06c4a779ce948335e06dabf60419cafa5081ba0
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-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=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" "+b10dae361a61486cfbdcd3aae3877ee17e00d192" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] a7347eb388ba2c13a26b1d446adaf0e8ae0573498533a74f008437471ce23026
[INFO] running `Command { std: "docker" "start" "-a" "a7347eb388ba2c13a26b1d446adaf0e8ae0573498533a74f008437471ce23026", kill_on_drop: false }`
[INFO] [stderr]    Compiling proc-macro2 v1.0.106
[INFO] [stderr]    Compiling serde_core v1.0.228
[INFO] [stderr]    Compiling serde v1.0.228
[INFO] [stderr]    Compiling zerocopy v0.8.39
[INFO] [stderr]    Compiling num-traits v0.2.19
[INFO] [stderr]    Compiling matrixmultiply v0.3.10
[INFO] [stderr]    Compiling cc v1.2.55
[INFO] [stderr]     Checking memchr v2.8.0
[INFO] [stderr]    Compiling anyhow v1.0.101
[INFO] [stderr]    Compiling zmij v1.0.19
[INFO] [stderr]     Checking getrandom v0.2.17
[INFO] [stderr]    Compiling slog v2.8.2
[INFO] [stderr]    Compiling rustix v0.38.44
[INFO] [stderr]    Compiling num-conv v0.2.0
[INFO] [stderr]    Compiling termcolor v1.4.1
[INFO] [stderr]    Compiling regex-syntax v0.8.10
[INFO] [stderr]    Compiling cxxbridge-flags v1.0.194
[INFO] [stderr]    Compiling time-core v0.1.8
[INFO] [stderr]    Compiling scratch v1.0.9
[INFO] [stderr]    Compiling unicode-width v0.2.2
[INFO] [stderr]    Compiling time-macros v0.2.27
[INFO] [stderr]    Compiling linux-raw-sys v0.4.15
[INFO] [stderr]    Compiling bitflags v2.11.0
[INFO] [stderr]    Compiling aho-corasick v1.1.4
[INFO] [stderr]    Compiling codespan-reporting v0.13.1
[INFO] [stderr]    Compiling is-terminal v0.4.17
[INFO] [stderr]     Checking instant v0.1.13
[INFO] [stderr]    Compiling quote v1.0.44
[INFO] [stderr]    Compiling log v0.4.29
[INFO] [stderr]    Compiling slog-async v2.8.0
[INFO] [stderr]     Checking simd-adler32 v0.3.8
[INFO] [stderr]    Compiling home v0.5.12
[INFO] [stderr]    Compiling syn v2.0.114
[INFO] [stderr]    Compiling either v1.15.0
[INFO] [stderr]    Compiling humantime v2.3.0
[INFO] [stderr]    Compiling linfa v0.6.1
[INFO] [stderr]     Checking miniz_oxide v0.8.9
[INFO] [stderr]     Checking csv-core v0.1.13
[INFO] [stderr]     Checking num-integer v0.1.46
[INFO] [stderr]     Checking num-complex v0.4.6
[INFO] [stderr]     Checking approx v0.4.0
[INFO] [stderr]     Checking approx v0.5.1
[INFO] [stderr]     Checking num-bigint v0.4.6
[INFO] [stderr]     Checking num-iter v0.1.45
[INFO] [stderr]     Checking chrono v0.4.43
[INFO] [stderr]     Checking crossbeam-channel v0.5.15
[INFO] [stderr]    Compiling linfa v0.7.1
[INFO] [stderr]     Checking term v1.2.1
[INFO] [stderr]     Checking flate2 v1.1.9
[INFO] [stderr]    Compiling rayon-core v1.13.0
[INFO] [stderr]     Checking clap_lex v0.7.7
[INFO] [stderr]     Checking ordered-float v5.1.0
[INFO] [stderr]     Checking figlet-rs v0.1.5
[INFO] [stderr]    Compiling regex-automata v0.4.14
[INFO] [stderr]     Checking clap_builder v4.5.57
[INFO] [stderr]    Compiling link-cplusplus v1.0.12
[INFO] [stderr]    Compiling cxx v1.0.194
[INFO] [stderr]     Checking num-rational v0.4.2
[INFO] [stderr]     Checking rayon v1.11.0
[INFO] [stderr]     Checking time v0.3.47
[INFO] [stderr]     Checking num v0.4.3
[INFO] [stderr]     Checking serde_json v1.0.149
[INFO] [stderr]     Checking csv v1.4.0
[INFO] [stderr]    Compiling which v4.4.2
[INFO] [stderr]    Compiling cxx-build v1.0.194
[INFO] [stderr]    Compiling serde_derive v1.0.228
[INFO] [stderr]    Compiling thiserror-impl v1.0.69
[INFO] [stderr]    Compiling cxxbridge-macro v1.0.194
[INFO] [stderr]    Compiling clap_derive v4.5.55
[INFO] [stderr]    Compiling regex v1.12.3
[INFO] [stderr]    Compiling env_logger v0.10.2
[INFO] [stderr]     Checking ppv-lite86 v0.2.21
[INFO] [stderr]     Checking thiserror v1.0.69
[INFO] [stderr]    Compiling rdkit-sys v0.4.12
[INFO] [stderr]     Checking clap v4.5.57
[INFO] [stderr] warning: rdkit-sys@0.4.12: In file included from /opt/rustwide/target/debug/build/rdkit-sys-279c804f82eed6f7/out/cxxbridge/sources/rdkit-sys/src/bridge/fingerprint.rs.cc:1:
[INFO] [stderr] warning: rdkit-sys@0.4.12: /opt/rustwide/cargo-home/registry/src/index.crates.io-1949cf8c6b5b557f/rdkit-sys-0.4.12/wrapper/include/ro_mol.h:4:10: fatal error: DataStructs/ExplicitBitVect.h: No such file or directory
[INFO] [stderr] warning: rdkit-sys@0.4.12:     4 | #include <DataStructs/ExplicitBitVect.h>
[INFO] [stderr] warning: rdkit-sys@0.4.12:       |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
[INFO] [stderr] warning: rdkit-sys@0.4.12: compilation terminated.
[INFO] [stderr] error: failed to run custom build command for `rdkit-sys v0.4.12`
[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/rdkit-sys-e5293f3f98459cf4/build-script-build` (exit status: 1)
[INFO] [stderr]   --- stdout
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/src/fingerprint.cc
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/include/fingerprint.h
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/src/descriptors.cc
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/include/descriptors.h
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/src/substruct_match.cc
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/include/substruct_match.h
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/src/ro_mol.cc
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/include/ro_mol.h
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/src/mol_ops.cc
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/include/mol_ops.h
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/src/periodic_table.cc
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/include/periodic_table.h
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/src/scaffold_network.cc
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/include/scaffold_network.h
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/src/rw_mol.cc
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/include/rw_mol.h
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/src/mol_standardize.cc
[INFO] [stderr]   cargo:rerun-if-changed=wrapper/include/mol_standardize.h
[INFO] [stderr]   cargo:rerun-if-changed=src/bridge/fingerprint.rs
[INFO] [stderr]   cargo:rerun-if-changed=src/bridge/descriptors.rs
[INFO] [stderr]   cargo:rerun-if-changed=src/bridge/substruct_match.rs
[INFO] [stderr]   cargo:rerun-if-changed=src/bridge/ro_mol.rs
[INFO] [stderr]   cargo:rerun-if-changed=src/bridge/mol_ops.rs
[INFO] [stderr]   cargo:rerun-if-changed=src/bridge/periodic_table.rs
[INFO] [stderr]   cargo:rerun-if-changed=src/bridge/scaffold_network.rs
[INFO] [stderr]   cargo:rerun-if-changed=src/bridge/rw_mol.rs
[INFO] [stderr]   cargo:rerun-if-changed=src/bridge/mol_standardize.rs
[INFO] [stderr]   cargo:CXXBRIDGE_PREFIX=rdkit-sys
[INFO] [stderr]   cargo:CXXBRIDGE_DIR0=/opt/rustwide/target/debug/build/rdkit-sys-279c804f82eed6f7/out/cxxbridge/include
[INFO] [stderr]   cargo:CXXBRIDGE_DIR1=/opt/rustwide/target/debug/build/rdkit-sys-279c804f82eed6f7/out/cxxbridge/crate
[INFO] [stderr]   OUT_DIR = Some(/opt/rustwide/target/debug/build/rdkit-sys-279c804f82eed6f7/out)
[INFO] [stderr]   OPT_LEVEL = Some(0)
[INFO] [stderr]   TARGET = Some(x86_64-unknown-linux-gnu)
[INFO] [stderr]   CARGO_ENCODED_RUSTFLAGS = Some(--cap-lints=forbid)
[INFO] [stderr]   HOST = Some(x86_64-unknown-linux-gnu)
[INFO] [stderr]   cargo:rerun-if-env-changed=CXX_x86_64-unknown-linux-gnu
[INFO] [stderr]   CXX_x86_64-unknown-linux-gnu = None
[INFO] [stderr]   cargo:rerun-if-env-changed=CXX_x86_64_unknown_linux_gnu
[INFO] [stderr]   CXX_x86_64_unknown_linux_gnu = None
[INFO] [stderr]   cargo:rerun-if-env-changed=HOST_CXX
[INFO] [stderr]   HOST_CXX = None
[INFO] [stderr]   cargo:rerun-if-env-changed=CXX
[INFO] [stderr]   CXX = 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,x87)
[INFO] [stderr]   cargo:rerun-if-env-changed=CXXFLAGS
[INFO] [stderr]   CXXFLAGS = None
[INFO] [stderr]   cargo:rerun-if-env-changed=HOST_CXXFLAGS
[INFO] [stderr]   HOST_CXXFLAGS = None
[INFO] [stderr]   cargo:rerun-if-env-changed=CXXFLAGS_x86_64_unknown_linux_gnu
[INFO] [stderr]   CXXFLAGS_x86_64_unknown_linux_gnu = None
[INFO] [stderr]   cargo:rerun-if-env-changed=CXXFLAGS_x86_64-unknown-linux-gnu
[INFO] [stderr]   CXXFLAGS_x86_64-unknown-linux-gnu = None
[INFO] [stderr]   cargo:warning=In file included from /opt/rustwide/target/debug/build/rdkit-sys-279c804f82eed6f7/out/cxxbridge/sources/rdkit-sys/src/bridge/fingerprint.rs.cc:1:
[INFO] [stderr]   cargo:warning=/opt/rustwide/cargo-home/registry/src/index.crates.io-1949cf8c6b5b557f/rdkit-sys-0.4.12/wrapper/include/ro_mol.h:4:10: fatal error: DataStructs/ExplicitBitVect.h: No such file or directory
[INFO] [stderr]   cargo:warning=    4 | #include <DataStructs/ExplicitBitVect.h>
[INFO] [stderr]   cargo:warning=      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
[INFO] [stderr]   cargo:warning=compilation terminated.
[INFO] [stderr] 
[INFO] [stderr]   --- stderr
[INFO] [stderr] 
[INFO] [stderr]   CXX include path:
[INFO] [stderr]     /opt/rustwide/target/debug/build/rdkit-sys-279c804f82eed6f7/out/cxxbridge/include
[INFO] [stderr]     /opt/rustwide/target/debug/build/rdkit-sys-279c804f82eed6f7/out/cxxbridge/crate
[INFO] [stderr] 
[INFO] [stderr] 
[INFO] [stderr]   error occurred in cc-rs: command did not execute successfully (status code exit status: 1): LC_ALL="C" "c++" "-O0" "-ffunction-sections" "-fdata-sections" "-fPIC" "-g" "-gdwarf-4" "-fno-omit-frame-pointer" "-m64" "-I" "/opt/rustwide/target/debug/build/rdkit-sys-279c804f82eed6f7/out/cxxbridge/include" "-I" "/opt/rustwide/target/debug/build/rdkit-sys-279c804f82eed6f7/out/cxxbridge/crate" "-I" "/usr/local/include" "-I" "/usr/local/include/rdkit" "-I" "/usr/include" "-I" "/usr/include/rdkit" "-I" "/opt/rustwide/cargo-home/registry/src/index.crates.io-1949cf8c6b5b557f/rdkit-sys-0.4.12" "-w" "-std=c++17" "-o" "/opt/rustwide/target/debug/build/rdkit-sys-279c804f82eed6f7/out/9e0da1bcf04e650a-fingerprint.rs.o" "-c" "/opt/rustwide/target/debug/build/rdkit-sys-279c804f82eed6f7/out/cxxbridge/sources/rdkit-sys/src/bridge/fingerprint.rs.cc"
[INFO] [stderr] 
[INFO] [stderr] 
[INFO] [stderr] warning: build failed, waiting for other jobs to finish...
[INFO] running `Command { std: "docker" "inspect" "a7347eb388ba2c13a26b1d446adaf0e8ae0573498533a74f008437471ce23026", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "a7347eb388ba2c13a26b1d446adaf0e8ae0573498533a74f008437471ce23026", kill_on_drop: false }`
[INFO] [stdout] a7347eb388ba2c13a26b1d446adaf0e8ae0573498533a74f008437471ce23026