[INFO] fetching crate structscope-core 0.4.1...
[INFO] testing structscope-core-0.4.1 against 1.100.0-beta.1+cargoflags=--release for beta-release-1.100-2
[INFO] extracting crate structscope-core 0.4.1 into /workspace/builds/worker-1-tc2/source
[INFO] started tweaking crates.io crate structscope-core 0.4.1
[INFO] removed 0 missing tests
[INFO] finished tweaking crates.io crate structscope-core 0.4.1
[INFO] tweaked toml for crates.io crate structscope-core 0.4.1 written to /workspace/builds/worker-1-tc2/source/Cargo.toml
[INFO] validating manifest of crates.io crate structscope-core 0.4.1 on toolchain 1.100.0-beta.1
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.100.0-beta.1" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate crates.io crate structscope-core 0.4.1 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" "+1.100.0-beta.1" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:40:12
[INFO] [stderr]    |
[INFO] [stderr] 40 | homepage = "https://github.com/Danialgharaie/structscope"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 45 | repository = "https://github.com/Danialgharaie/structscope"
[INFO] [stderr]    |              ----------------------------------------------
[INFO] [stderr]    |
[INFO] [stderr]    = note: `cargo::redundant_homepage` is set to `warn` by default
[INFO] [stderr] help: consider removing `package.homepage`
[INFO] [stderr] warning: `structscope-core` (manifest) generated 1 warning
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/target:/opt/rustwide/target:rw,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" "-m" "1610612736" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:77db811e55d90add9212f6832c23229e3de5f1c1f9905e8cb07319ea15df73ac" "sleep" "infinity", kill_on_drop: false }`
[INFO] [stdout] 94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff
[INFO] running `Command { std: "docker" "start" "94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-w" "/opt/rustwide/workdir" "--user" "0:0" "94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-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" "-w" "/opt/rustwide/workdir" "--user" "0:0" "94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "build" "--frozen" "--message-format=json" "--release", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:40:12
[INFO] [stderr]    |
[INFO] [stderr] 40 | homepage = "https://github.com/Danialgharaie/structscope"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 45 | repository = "https://github.com/Danialgharaie/structscope"
[INFO] [stderr]    |              ----------------------------------------------
[INFO] [stderr]    |
[INFO] [stderr]    = note: `cargo::redundant_homepage` is set to `warn` by default
[INFO] [stderr] help: consider removing `package.homepage`
[INFO] [stderr] warning: `structscope-core` (manifest) generated 1 warning
[INFO] [stderr]    Compiling either v1.16.0
[INFO] [stderr]    Compiling syn v2.0.117
[INFO] [stderr]    Compiling rmp v0.8.15
[INFO] [stderr]    Compiling itertools v0.12.1
[INFO] [stderr]    Compiling rmpv v1.3.1
[INFO] [stderr]    Compiling thiserror-impl v1.0.69
[INFO] [stderr]    Compiling serde_derive v1.0.228
[INFO] [stderr]    Compiling thiserror v1.0.69
[INFO] [stderr]    Compiling pdbrust v0.7.0
[INFO] [stderr]    Compiling serde v1.0.228
[INFO] [stderr]    Compiling structscope-core v0.4.1 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished `release` profile [optimized] target(s) in 12.24s
[INFO] running `Command { std: "docker" "inspect" "94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-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" "-w" "/opt/rustwide/workdir" "--user" "0:0" "94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "test" "--frozen" "--no-run" "--message-format=json" "--release", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:40:12
[INFO] [stderr]    |
[INFO] [stderr] 40 | homepage = "https://github.com/Danialgharaie/structscope"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 45 | repository = "https://github.com/Danialgharaie/structscope"
[INFO] [stderr]    |              ----------------------------------------------
[INFO] [stderr]    |
[INFO] [stderr]    = note: `cargo::redundant_homepage` is set to `warn` by default
[INFO] [stderr] help: consider removing `package.homepage`
[INFO] [stderr] warning: `structscope-core` (manifest) generated 1 warning
[INFO] [stderr]    Compiling structscope-core v0.4.1 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished `release` profile [optimized] target(s) in 4.85s
[INFO] running `Command { std: "docker" "inspect" "94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-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" "-w" "/opt/rustwide/workdir" "--user" "0:0" "94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "test" "--frozen" "--release", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:40:12
[INFO] [stderr]    |
[INFO] [stderr] 40 | homepage = "https://github.com/Danialgharaie/structscope"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 45 | repository = "https://github.com/Danialgharaie/structscope"
[INFO] [stderr]    |              ----------------------------------------------
[INFO] [stderr]    |
[INFO] [stderr]    = note: `cargo::redundant_homepage` is set to `warn` by default
[INFO] [stderr] help: consider removing `package.homepage`
[INFO] [stderr] warning: `structscope-core` (manifest) generated 1 warning
[INFO] [stderr]     Finished `release` profile [optimized] target(s) in 0.04s
[INFO] [stderr]      Running unittests src/lib.rs (/opt/rustwide/target/release/build/structscope-core/5484af5f059a2cff/out/structscope_core-5484af5f059a2cff)
[INFO] [stdout] 
[INFO] [stdout] running 17 tests
[INFO] [stdout] test rmsd::tests::equal_length_ca_zero_rmsd ... ok
[INFO] [stdout] test seqalign::tests::handles_internal_gap ... ok
[INFO] [stdout] test seqalign::tests::identical_sequences_align_fully ... ok
[INFO] [stdout] test seqalign::tests::smith_waterman_finds_local_region ... ok
[INFO] [stdout] test seqalign::tests::three_to_one_maps_standard_and_unknown ... ok
[INFO] [stdout] test align::tests::identical_sets_zero_rmsd ... ok
[INFO] [stdout] test align::tests::recovers_known_rotation ... ok
[INFO] [stdout] test align::tests::noncongruent_sets_positive_rmsd ... ok
[INFO] [stdout] test parser::tests::parses_pdb_summary ... ok
[INFO] [stdout] test rmsd::tests::aligned_different_length_structures ... ok
[INFO] [stdout] test ligand_filter::tests::protein_residues_never_ligands ... ok
[INFO] [stdout] test ligand_filter::tests::default_excludes_water_and_sodium ... ok
[INFO] [stdout] test ligand_filter::tests::include_only_overrides_defaults ... ok
[INFO] [stdout] test parser::tests::keeps_highest_occupancy_altloc_per_residue ... ok
[INFO] [stdout] test ligand_filter::tests::exclude_is_additive ... ok
[INFO] [stdout] test parser::tests::parses_gzip_pdb_file ... ok
[INFO] [stdout] test parser::tests::parses_mmcif_summary ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 17 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.01s
[INFO] [stdout] 
[INFO] [stderr]      Running tests/rcsb_corpus.rs (/opt/rustwide/target/release/build/structscope-core/1c0ca07699e6cf6e/out/rcsb_corpus-1c0ca07699e6cf6e)
[INFO] [stdout] 
[INFO] [stdout] running 2 tests
[INFO] [stdout] test bcif_matches_mmcif_summary ... FAILED
[INFO] [stderr] error: test failed, to rerun pass `--test rcsb_corpus`
[INFO] [stdout] test parses_checked_in_rcsb_corpus ... FAILED
[INFO] [stdout] 
[INFO] [stdout] failures:
[INFO] [stdout] 
[INFO] [stdout] ---- bcif_matches_mmcif_summary stdout ----
[INFO] [stdout] 
[INFO] [stdout] thread 'bcif_matches_mmcif_summary' (443) panicked at tests/rcsb_corpus.rs:80:35:
[INFO] [stdout] failed to parse 100d.bcif: failed to read input: No such file or directory (os error 2)
[INFO] [stdout] stack backtrace:
[INFO] [stdout]    0:     0x56306a539081 - <<std[617be2ca0a6fd877]::sys::backtrace::BacktraceLock>::print::DisplayBacktrace as core[a373ad73a504971]::fmt::Display>::fmt
[INFO] [stdout]    1:     0x56306a54f26a - core[a373ad73a504971]::fmt::write
[INFO] [stdout]    2:     0x56306a53da8c - <alloc[2e1b2a31b91974c5]::vec::Vec<u8> as core[a373ad73a504971]::io::write::Write>::write_fmt
[INFO] [stdout]    3:     0x56306a514226 - std[617be2ca0a6fd877]::panicking::default_hook::{closure#0}
[INFO] [stdout]    4:     0x56306a5311d9 - std[617be2ca0a6fd877]::panicking::default_hook
[INFO] [stdout]    5:     0x56306a490b10 - test[aada8e7e76ba119b]::test_main_inner::{closure#0}
[INFO] [stdout]    6:     0x56306a531392 - std[617be2ca0a6fd877]::panicking::panic_with_hook
[INFO] [stdout]    7:     0x56306a5142d2 - std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}
[INFO] [stdout]    8:     0x56306a50c829 - std[617be2ca0a6fd877]::sys::backtrace::__rust_end_short_backtrace::<std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}, !>
[INFO] [stdout]    9:     0x56306a514fed - __rustc[ea4f61d10b84890b]::rust_begin_unwind
[INFO] [stdout]   10:     0x56306a54f99c - core[a373ad73a504971]::panicking::panic_fmt
[INFO] [stdout]   11:     0x56306a480f55 - rcsb_corpus[396da4319ed68a3b]::bcif_matches_mmcif_summary::{closure#0}
[INFO] [stdout]   12:     0x56306a4820b9 - <rcsb_corpus[396da4319ed68a3b]::bcif_matches_mmcif_summary::{closure#0} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once
[INFO] [stdout]   13:     0x56306a483f5b - test[aada8e7e76ba119b]::__rust_begin_short_backtrace::<core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>, fn() -> core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>>
[INFO] [stdout]   14:     0x56306a491135 - test[aada8e7e76ba119b]::run_test::{closure#0}
[INFO] [stdout]   15:     0x56306a48aa24 - std[617be2ca0a6fd877]::sys::backtrace::__rust_begin_short_backtrace::<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>
[INFO] [stdout]   16:     0x56306a4941c2 - <std[617be2ca0a6fd877]::thread::lifecycle::spawn_unchecked<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>::{closure#1} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once::{shim:vtable#0}
[INFO] [stdout]   17:     0x56306a5385cf - <std[617be2ca0a6fd877]::sys::thread::unix::Thread>::new::thread_start
[INFO] [stdout]   18:     0x7bda6bef7dfa - <unknown>
[INFO] [stdout]   19:     0x7bda6bf8b3d4 - clone
[INFO] [stdout]   20:                0x0 - <unknown>
[INFO] [stdout] 
[INFO] [stdout] ---- parses_checked_in_rcsb_corpus stdout ----
[INFO] [stdout] 
[INFO] [stdout] thread 'parses_checked_in_rcsb_corpus' (444) panicked at tests/rcsb_corpus.rs:41:31:
[INFO] [stdout] failed to read /opt/rustwide/workdir/../../tests/corpus/rcsb/mmcif: No such file or directory (os error 2)
[INFO] [stdout] stack backtrace:
[INFO] [stdout]    0:     0x56306a539081 - <<std[617be2ca0a6fd877]::sys::backtrace::BacktraceLock>::print::DisplayBacktrace as core[a373ad73a504971]::fmt::Display>::fmt
[INFO] [stdout]    1:     0x56306a54f26a - core[a373ad73a504971]::fmt::write
[INFO] [stdout]    2:     0x56306a53da8c - <alloc[2e1b2a31b91974c5]::vec::Vec<u8> as core[a373ad73a504971]::io::write::Write>::write_fmt
[INFO] [stdout]    3:     0x56306a514226 - std[617be2ca0a6fd877]::panicking::default_hook::{closure#0}
[INFO] [stdout]    4:     0x56306a5311d9 - std[617be2ca0a6fd877]::panicking::default_hook
[INFO] [stdout]    5:     0x56306a490b10 - test[aada8e7e76ba119b]::test_main_inner::{closure#0}
[INFO] [stdout]    6:     0x56306a531392 - std[617be2ca0a6fd877]::panicking::panic_with_hook
[INFO] [stdout]    7:     0x56306a5142d2 - std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}
[INFO] [stdout]    8:     0x56306a50c829 - std[617be2ca0a6fd877]::sys::backtrace::__rust_end_short_backtrace::<std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}, !>
[INFO] [stdout]    9:     0x56306a514fed - __rustc[ea4f61d10b84890b]::rust_begin_unwind
[INFO] [stdout]   10:     0x56306a54f99c - core[a373ad73a504971]::panicking::panic_fmt
[INFO] [stdout]   11:     0x56306a480ec9 - rcsb_corpus[396da4319ed68a3b]::collect_fixture_files::{closure#0}
[INFO] [stdout]   12:     0x56306a48157f - rcsb_corpus[396da4319ed68a3b]::collect_fixture_files
[INFO] [stdout]   13:     0x56306a4822b5 - <rcsb_corpus[396da4319ed68a3b]::parses_checked_in_rcsb_corpus::{closure#0} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once
[INFO] [stdout]   14:     0x56306a483f5b - test[aada8e7e76ba119b]::__rust_begin_short_backtrace::<core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>, fn() -> core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>>
[INFO] [stdout]   15:     0x56306a491135 - test[aada8e7e76ba119b]::run_test::{closure#0}
[INFO] [stdout]   16:     0x56306a48aa24 - std[617be2ca0a6fd877]::sys::backtrace::__rust_begin_short_backtrace::<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>
[INFO] [stdout]   17:     0x56306a4941c2 - <std[617be2ca0a6fd877]::thread::lifecycle::spawn_unchecked<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>::{closure#1} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once::{shim:vtable#0}
[INFO] [stdout]   18:     0x56306a5385cf - <std[617be2ca0a6fd877]::sys::thread::unix::Thread>::new::thread_start
[INFO] [stdout]   19:     0x7bda6bef7dfa - <unknown>
[INFO] [stdout]   20:     0x7bda6bf8b3d4 - clone
[INFO] [stdout]   21:                0x0 - <unknown>
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] failures:
[INFO] [stdout]     bcif_matches_mmcif_summary
[INFO] [stdout]     parses_checked_in_rcsb_corpus
[INFO] [stdout] 
[INFO] [stdout] test result: FAILED. 0 passed; 2 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.01s
[INFO] [stdout] 
[INFO] running `Command { std: "docker" "inspect" "94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff", kill_on_drop: false }`
[INFO] [stdout] 94db23a4f131aa05ae85296d850b389b7ad65554ab22600ea63360a229a49eff
