[INFO] cloning repository https://github.com/apahl/rdkit_cxx [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/apahl/rdkit_cxx" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fapahl%2Frdkit_cxx", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fapahl%2Frdkit_cxx'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] ad795088060a4804584ba88f3a50669aae9093ed [INFO] documenting apahl/rdkit_cxx against nightly for scrape-examples [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fapahl%2Frdkit_cxx" "/workspace/builds/worker-3/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-3/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/apahl/rdkit_cxx on toolchain nightly [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+nightly" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/apahl/rdkit_cxx [INFO] finished tweaking git repo https://github.com/apahl/rdkit_cxx [INFO] tweaked toml for git repo https://github.com/apahl/rdkit_cxx written to /workspace/builds/worker-3/source/Cargo.toml [INFO] crate git repo https://github.com/apahl/rdkit_cxx already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+nightly" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/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:bb5b0feb4f87116a4ea905b7ff5bf5b85913db05e9f0fbc1abdd3168928d9075" "/opt/rustwide/cargo-home/bin/cargo" "+nightly" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] fba4bc69b1b0ef6c29224a89bf30b4aba06d4e49bd268d3527ce003460affd73 [INFO] running `Command { std: "docker" "start" "-a" "fba4bc69b1b0ef6c29224a89bf30b4aba06d4e49bd268d3527ce003460affd73", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "fba4bc69b1b0ef6c29224a89bf30b4aba06d4e49bd268d3527ce003460affd73", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "fba4bc69b1b0ef6c29224a89bf30b4aba06d4e49bd268d3527ce003460affd73", kill_on_drop: false }` [INFO] [stdout] fba4bc69b1b0ef6c29224a89bf30b4aba06d4e49bd268d3527ce003460affd73 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/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:bb5b0feb4f87116a4ea905b7ff5bf5b85913db05e9f0fbc1abdd3168928d9075" "/opt/rustwide/cargo-home/bin/cargo" "+nightly" "doc" "--frozen" "--no-deps" "--document-private-items" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 043d9b9c1a4225f35556913fda8002edcfb8c40d066f79d13c53d06936e1823e [INFO] running `Command { std: "docker" "start" "-a" "043d9b9c1a4225f35556913fda8002edcfb8c40d066f79d13c53d06936e1823e", kill_on_drop: false }` [INFO] [stderr] Compiling cc v1.0.73 [INFO] [stderr] Compiling proc-macro2 v1.0.46 [INFO] [stderr] Compiling unicode-ident v1.0.5 [INFO] [stderr] Compiling quote v1.0.21 [INFO] [stderr] Compiling syn v1.0.102 [INFO] [stderr] Compiling scratch v1.0.2 [INFO] [stderr] Compiling cxxbridge-flags v1.0.78 [INFO] [stderr] Compiling unicode-width v0.1.10 [INFO] [stderr] Compiling termcolor v1.1.3 [INFO] [stderr] Compiling once_cell v1.15.0 [INFO] [stderr] Compiling codespan-reporting v0.11.1 [INFO] [stderr] Compiling link-cplusplus v1.0.7 [INFO] [stderr] Compiling cxx v1.0.78 [INFO] [stderr] Compiling cxx-build v1.0.78 [INFO] [stderr] Compiling cxxbridge-macro v1.0.78 [INFO] [stderr] Compiling rdkit v0.1.0 (/opt/rustwide/workdir) [INFO] [stderr] error: failed to run custom build command for `rdkit v0.1.0 (/opt/rustwide/workdir)` [INFO] [stderr] [INFO] [stderr] Caused by: [INFO] [stderr] process didn't exit successfully: `/opt/rustwide/target/debug/build/rdkit-0c82a2e8db5cda2c/build-script-build` (exit status: 101) [INFO] [stderr] --- stderr [INFO] [stderr] thread 'main' panicked at 'RDKIT_CONDA environment variable not set. [INFO] [stderr] Please set to the location of your conda RDKit installation, e.g. `/home/user/anaconda3/envs/chem`: NotPresent', build.rs:6:6 [INFO] [stderr] stack backtrace: [INFO] [stderr] 0: 0x563a4a56578a - std::backtrace_rs::backtrace::libunwind::trace::h3bfe63c4aecfa0e2 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/../../backtrace/src/backtrace/libunwind.rs:93:5 [INFO] [stderr] 1: 0x563a4a56578a - std::backtrace_rs::backtrace::trace_unsynchronized::h978c02637c6cb8f9 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/../../backtrace/src/backtrace/mod.rs:66:5 [INFO] [stderr] 2: 0x563a4a56578a - std::sys_common::backtrace::_print_fmt::h86a708dcb1665377 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/sys_common/backtrace.rs:65:5 [INFO] [stderr] 3: 0x563a4a56578a - ::fmt::hdbf89765373fb801 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/sys_common/backtrace.rs:44:22 [INFO] [stderr] 4: 0x563a4a58630e - core::fmt::write::hbf11a3bb4e6d2aba [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/core/src/fmt/mod.rs:1208:17 [INFO] [stderr] 5: 0x563a4a561ca5 - std::io::Write::write_fmt::hd68261eacc348bbd [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/io/mod.rs:1682:15 [INFO] [stderr] 6: 0x563a4a565555 - std::sys_common::backtrace::_print::ha8e375b58cdeca4a [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/sys_common/backtrace.rs:47:5 [INFO] [stderr] 7: 0x563a4a565555 - std::sys_common::backtrace::print::he3086c07df1167ca [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/sys_common/backtrace.rs:34:9 [INFO] [stderr] 8: 0x563a4a566edf - std::panicking::default_hook::{{closure}}::h0c12a9095c948e43 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/panicking.rs:267:22 [INFO] [stderr] 9: 0x563a4a566c1b - std::panicking::default_hook::h1ae5478ad617eb24 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/panicking.rs:286:9 [INFO] [stderr] 10: 0x563a4a5675ec - std::panicking::rust_panic_with_hook::h63a24f957ccb5d93 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/panicking.rs:688:13 [INFO] [stderr] 11: 0x563a4a567389 - std::panicking::begin_panic_handler::{{closure}}::h1499194b322f3b28 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/panicking.rs:579:13 [INFO] [stderr] 12: 0x563a4a565c3c - std::sys_common::backtrace::__rust_end_short_backtrace::h5569dab7b5c29ca8 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/sys_common/backtrace.rs:137:18 [INFO] [stderr] 13: 0x563a4a567092 - rust_begin_unwind [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/panicking.rs:575:5 [INFO] [stderr] 14: 0x563a4a19cb63 - core::panicking::panic_fmt::h81b99a9e904184d4 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/core/src/panicking.rs:64:14 [INFO] [stderr] 15: 0x563a4a19cf33 - core::result::unwrap_failed::h524cd100bfaa4af3 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/core/src/result.rs:1791:5 [INFO] [stderr] 16: 0x563a4a19f086 - core::result::Result::expect::h5ae857f5ec43935e [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/core/src/result.rs:1070:23 [INFO] [stderr] 17: 0x563a4a19e65b - build_script_build::main::h3938870e4e42468a [INFO] [stderr] at /opt/rustwide/workdir/build.rs:5:23 [INFO] [stderr] 18: 0x563a4a19f99b - core::ops::function::FnOnce::call_once::ha04b4b233329c656 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/core/src/ops/function.rs:507:5 [INFO] [stderr] 19: 0x563a4a19e3ee - std::sys_common::backtrace::__rust_begin_short_backtrace::h56853873b79f8027 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/sys_common/backtrace.rs:121:18 [INFO] [stderr] 20: 0x563a4a19f831 - std::rt::lang_start::{{closure}}::h679407e465274262 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/rt.rs:166:18 [INFO] [stderr] 21: 0x563a4a55c77c - core::ops::function::impls:: for &F>::call_once::h78c42ac725efa1cf [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/core/src/ops/function.rs:606:13 [INFO] [stderr] 22: 0x563a4a55c77c - std::panicking::try::do_call::he9c2e2d3c1d542c9 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/panicking.rs:483:40 [INFO] [stderr] 23: 0x563a4a55c77c - std::panicking::try::h1c6aa5d0fbd926ce [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/panicking.rs:447:19 [INFO] [stderr] 24: 0x563a4a55c77c - std::panic::catch_unwind::h8c18c387443a8343 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/panic.rs:137:14 [INFO] [stderr] 25: 0x563a4a55c77c - std::rt::lang_start_internal::{{closure}}::h121da69a0c637bbc [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/rt.rs:148:48 [INFO] [stderr] 26: 0x563a4a55c77c - std::panicking::try::do_call::h02c50a2227007615 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/panicking.rs:483:40 [INFO] [stderr] 27: 0x563a4a55c77c - std::panicking::try::h2e22346eb385c3b2 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/panicking.rs:447:19 [INFO] [stderr] 28: 0x563a4a55c77c - std::panic::catch_unwind::hba27888842669aa2 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/panic.rs:137:14 [INFO] [stderr] 29: 0x563a4a55c77c - std::rt::lang_start_internal::hfeb0a6ef3b443c94 [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/rt.rs:148:20 [INFO] [stderr] 30: 0x563a4a19f80a - std::rt::lang_start::hf2666372a7b930ff [INFO] [stderr] at /rustc/bdb07a8ec8e77aa10fb84fae1d4ff71c21180bb4/library/std/src/rt.rs:165:17 [INFO] [stderr] 31: 0x563a4a19ec3e - main [INFO] [stderr] 32: 0x7f07ec56a083 - __libc_start_main [INFO] [stderr] 33: 0x563a4a19d11e - _start [INFO] [stderr] 34: 0x0 - [INFO] [stderr] warning: build failed, waiting for other jobs to finish... [INFO] running `Command { std: "docker" "inspect" "043d9b9c1a4225f35556913fda8002edcfb8c40d066f79d13c53d06936e1823e", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "043d9b9c1a4225f35556913fda8002edcfb8c40d066f79d13c53d06936e1823e", kill_on_drop: false }` [INFO] [stdout] 043d9b9c1a4225f35556913fda8002edcfb8c40d066f79d13c53d06936e1823e