[INFO] cloning repository https://github.com/michaelJwilson/rna_edit_distance
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/michaelJwilson/rna_edit_distance" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FmichaelJwilson%2Frna_edit_distance", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FmichaelJwilson%2Frna_edit_distance'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 76a028b2a7ee819f745d7708cec913f24a430721
[INFO] testing michaelJwilson/rna_edit_distance against nightly-2025-01-18+rustflags=-Zrandomize-layout for randomize-layout-2
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FmichaelJwilson%2Frna_edit_distance" "/workspace/builds/worker-1-tc2/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-1-tc2/source'...
[INFO] [stderr] done.
[INFO] validating manifest of git repo https://github.com/michaelJwilson/rna_edit_distance on toolchain nightly-2025-01-18
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+nightly-2025-01-18" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking git repo https://github.com/michaelJwilson/rna_edit_distance
[INFO] finished tweaking git repo https://github.com/michaelJwilson/rna_edit_distance
[INFO] tweaked toml for git repo https://github.com/michaelJwilson/rna_edit_distance written to /workspace/builds/worker-1-tc2/source/Cargo.toml
[INFO] crate git repo https://github.com/michaelJwilson/rna_edit_distance 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" "+nightly-2025-01-18" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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@sha256:819108c5571ea2e421544af4d832f968d213c87fbe3707a016657f43d2f853bc" "/opt/rustwide/cargo-home/bin/cargo" "+nightly-2025-01-18" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 95e4b380003e15051718b60e1eac6b1941e8bac448d5c464a6a4034333225b0f
[INFO] running `Command { std: "docker" "start" "-a" "95e4b380003e15051718b60e1eac6b1941e8bac448d5c464a6a4034333225b0f", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "95e4b380003e15051718b60e1eac6b1941e8bac448d5c464a6a4034333225b0f", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "95e4b380003e15051718b60e1eac6b1941e8bac448d5c464a6a4034333225b0f", kill_on_drop: false }`
[INFO] [stdout] 95e4b380003e15051718b60e1eac6b1941e8bac448d5c464a6a4034333225b0f
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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 -Zrandomize-layout" "-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@sha256:819108c5571ea2e421544af4d832f968d213c87fbe3707a016657f43d2f853bc" "/opt/rustwide/cargo-home/bin/cargo" "+nightly-2025-01-18" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 1d8b637042a995802a3056075792682f0af53888de973330d4f31a87ae1199c8
[INFO] running `Command { std: "docker" "start" "-a" "1d8b637042a995802a3056075792682f0af53888de973330d4f31a87ae1199c8", kill_on_drop: false }`
[INFO] [stderr]    Compiling libc v0.2.153
[INFO] [stderr]    Compiling pkg-config v0.3.30
[INFO] [stderr]    Compiling proc-macro2 v1.0.78
[INFO] [stderr]    Compiling memchr v2.7.1
[INFO] [stderr]    Compiling crossbeam-utils v0.8.19
[INFO] [stderr]    Compiling semver v0.1.20
[INFO] [stderr]    Compiling rustversion v1.0.14
[INFO] [stderr]    Compiling quick-error v1.2.3
[INFO] [stderr]    Compiling syn v1.0.109
[INFO] [stderr]    Compiling glob v0.3.1
[INFO] [stderr]    Compiling thiserror v1.0.57
[INFO] [stderr]    Compiling serde v1.0.196
[INFO] [stderr]    Compiling rayon-core v1.12.1
[INFO] [stderr]    Compiling ppv-lite86 v0.2.17
[INFO] [stderr]    Compiling linear-map v1.2.0
[INFO] [stderr]    Compiling byteorder v1.5.0
[INFO] [stderr]    Compiling fs-utils v1.1.4
[INFO] [stderr]    Compiling either v1.10.0
[INFO] [stderr]    Compiling custom_derive v0.1.7
[INFO] [stderr]    Compiling ieee754 v0.2.6
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]    Compiling aho-corasick v1.1.2
[INFO] [stderr]    Compiling csv-core v0.1.11
[INFO] [stderr]    Compiling crossbeam-epoch v0.9.18
[INFO] [stderr]    Compiling quote v1.0.35
[INFO] [stderr]    Compiling crossbeam-deque v0.8.5
[INFO] [stderr]    Compiling syn v2.0.48
[INFO] [stderr]    Compiling jobserver v0.1.28
[INFO] [stderr]    Compiling getrandom v0.2.12
[INFO] [stderr]    Compiling rand_core v0.6.4
[INFO] [stderr]    Compiling cc v1.0.83
[INFO] [stderr]    Compiling rand_chacha v0.3.1
[INFO] [stderr]    Compiling rand v0.8.5
[INFO] [stderr]    Compiling rayon v1.8.1
[INFO] [stderr]    Compiling openssl-src v300.2.3+3.2.1
[INFO] [stderr]    Compiling cmake v0.1.50
[INFO] [stderr]    Compiling openssl-sys v0.9.99
[INFO] [stderr]    Compiling bzip2-sys v0.1.11+1.0.8
[INFO] [stderr]    Compiling curl-sys v0.4.72+curl-8.6.0
[INFO] [stderr]    Compiling lzma-sys v0.1.20
[INFO] [stderr]    Compiling hts-sys v2.1.1
[INFO] [stderr]    Compiling rna_edit_distance v0.1.0 (/opt/rustwide/workdir)
[INFO] [stderr]    Compiling regex-automata v0.4.5
[INFO] [stderr]    Compiling libz-sys v1.1.15
[INFO] [stderr]    Compiling derive-new v0.5.9
[INFO] [stderr]    Compiling thiserror-impl v1.0.57
[INFO] [stderr]    Compiling serde_derive v1.0.196
[INFO] [stderr]    Compiling strum_macros v0.25.3
[INFO] [stderr]    Compiling regex v1.10.3
[INFO] [stderr]    Compiling bio-types v1.0.1
[INFO] [stderr]    Compiling csv v1.3.0
[INFO] [stderr]    Compiling rust-htslib v0.45.0
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 2m 22s
[INFO] running `Command { std: "docker" "inspect" "1d8b637042a995802a3056075792682f0af53888de973330d4f31a87ae1199c8", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "1d8b637042a995802a3056075792682f0af53888de973330d4f31a87ae1199c8", kill_on_drop: false }`
[INFO] [stdout] 1d8b637042a995802a3056075792682f0af53888de973330d4f31a87ae1199c8
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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 -Zrandomize-layout" "-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@sha256:819108c5571ea2e421544af4d832f968d213c87fbe3707a016657f43d2f853bc" "/opt/rustwide/cargo-home/bin/cargo" "+nightly-2025-01-18" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] e475ddeb95312b4752f150a6c63e55c71c407a486001529d9a9b9586ee307684
[INFO] running `Command { std: "docker" "start" "-a" "e475ddeb95312b4752f150a6c63e55c71c407a486001529d9a9b9586ee307684", kill_on_drop: false }`
[INFO] [stderr]    Compiling rna_edit_distance v0.1.0 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished `test` profile [unoptimized + debuginfo] target(s) in 1.21s
[INFO] running `Command { std: "docker" "inspect" "e475ddeb95312b4752f150a6c63e55c71c407a486001529d9a9b9586ee307684", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "e475ddeb95312b4752f150a6c63e55c71c407a486001529d9a9b9586ee307684", kill_on_drop: false }`
[INFO] [stdout] e475ddeb95312b4752f150a6c63e55c71c407a486001529d9a9b9586ee307684
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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 -Zrandomize-layout" "-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@sha256:819108c5571ea2e421544af4d832f968d213c87fbe3707a016657f43d2f853bc" "/opt/rustwide/cargo-home/bin/cargo" "+nightly-2025-01-18" "test" "--frozen", kill_on_drop: false }`
[INFO] [stdout] 4354975a20f2bd0cf37e74a272d45b7bf798f8a988def9db1978054f86ed9882
[INFO] running `Command { std: "docker" "start" "-a" "4354975a20f2bd0cf37e74a272d45b7bf798f8a988def9db1978054f86ed9882", kill_on_drop: false }`
[INFO] [stderr]     Finished `test` profile [unoptimized + debuginfo] target(s) in 0.09s
[INFO] [stderr]      Running unittests src/lib.rs (/opt/rustwide/target/debug/deps/rna_edit_distance-40c8fd9b6426fa51)
[INFO] [stdout] 
[INFO] [stdout] running 8 tests
[INFO] [stdout] test edit_distance::test_edit_distance::test_levenshtein_distance ... ok
[INFO] [stdout] test edit_distance::test_edit_distance::test_error_on_input_z ... ok
[INFO] [stdout] test base_frac::test_base_frac::test_base_frac ... ok
[INFO] [stdout] test edit_distance::test_edit_distance::test_simulate_rna ... ok
[INFO] [stdout] test sim_rna::test_simulate_rna::test_simulate_rna ... ok
[INFO] [stdout] test readers::test_read_csv::test_read_csv ... ok
[INFO] [stdout] test sim_rna_parallel::test_simulate_rna_parallel::test_simulate_rna_parallel ... ok
[INFO] [stdout] test edit_distance::test_edit_distance::test_levenshtein_distance_with_simulated_rna ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 8 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.10s
[INFO] [stdout] 
[INFO] [stderr]      Running unittests src/main.rs (/opt/rustwide/target/debug/deps/rna_edit_distance-93cd7007de979dc7)
[INFO] [stdout] 
[INFO] [stdout] running 0 tests
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[INFO] [stderr]    Doc-tests rna_edit_distance
[INFO] [stdout] 
[INFO] [stdout] running 1 test
[INFO] [stdout] test src/readers.rs - readers::read_csv (line 54) ... FAILED
[INFO] [stdout] 
[INFO] [stdout] failures:
[INFO] [stdout] 
[INFO] [stdout] ---- src/readers.rs - readers::read_csv (line 54) stdout ----
[INFO] [stdout] error[E0425]: cannot find function `read_csv` in this scope
[INFO] [stdout]  --> src/readers.rs:56:15
[INFO] [stdout]   |
[INFO] [stdout] 4 | let records = read_csv(filename);
[INFO] [stdout]   |               ^^^^^^^^ not found in this scope
[INFO] [stdout]   |
[INFO] [stdout] help: consider importing this function
[INFO] [stdout]   |
[INFO] [stdout] 2 + use rna_edit_distance::read_csv;
[INFO] [stdout]   |
[INFO] [stdout] 
[INFO] [stdout] error: aborting due to 1 previous error
[INFO] [stdout] 
[INFO] [stdout] For more information about this error, try `rustc --explain E0425`.
[INFO] [stdout] Couldn't compile the test.
[INFO] [stdout] 
[INFO] [stdout] failures:
[INFO] [stdout]     src/readers.rs - readers::read_csv (line 54)
[INFO] [stdout] 
[INFO] [stdout] test result: FAILED. 0 passed; 1 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.16s
[INFO] [stdout] 
[INFO] [stderr] error: doctest failed, to rerun pass `--doc`
[INFO] running `Command { std: "docker" "inspect" "4354975a20f2bd0cf37e74a272d45b7bf798f8a988def9db1978054f86ed9882", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "4354975a20f2bd0cf37e74a272d45b7bf798f8a988def9db1978054f86ed9882", kill_on_drop: false }`
[INFO] [stdout] 4354975a20f2bd0cf37e74a272d45b7bf798f8a988def9db1978054f86ed9882
