[INFO] fetching crate psdm 0.3.0... [INFO] testing psdm-0.3.0 against master#350d0ef0ec0493e6d21cfb265cb8211a0e74d766 for pr-145330-1 [INFO] extracting crate psdm 0.3.0 into /workspace/builds/worker-0-tc1/source [INFO] started tweaking crates.io crate psdm 0.3.0 [INFO] finished tweaking crates.io crate psdm 0.3.0 [INFO] tweaked toml for crates.io crate psdm 0.3.0 written to /workspace/builds/worker-0-tc1/source/Cargo.toml [INFO] validating manifest of crates.io crate psdm 0.3.0 on toolchain 350d0ef0ec0493e6d21cfb265cb8211a0e74d766 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+350d0ef0ec0493e6d21cfb265cb8211a0e74d766" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate crates.io crate psdm 0.3.0 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" "+350d0ef0ec0493e6d21cfb265cb8211a0e74d766" "fetch" "--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] Downloading crates ... [INFO] [stderr] Downloaded noodles-core v0.15.0 [INFO] [stderr] Downloaded anyhow v1.0.44 [INFO] [stderr] Downloaded indexmap v1.7.0 [INFO] [stderr] Downloaded termtree v0.2.3 [INFO] [stderr] Downloaded memoffset v0.6.4 [INFO] [stderr] Downloaded ppv-lite86 v0.2.15 [INFO] [stderr] Downloaded quote v1.0.10 [INFO] [stderr] Downloaded anstyle-query v1.1.0 [INFO] [stderr] Downloaded predicates-tree v1.0.4 [INFO] [stderr] Downloaded clap_lex v0.2.0 [INFO] [stderr] Downloaded bgzip v0.2.1 [INFO] [stderr] Downloaded proc-macro2 v1.0.32 [INFO] [stderr] Downloaded clap_derive v3.1.18 [INFO] [stderr] Downloaded matrixmultiply v0.3.1 [INFO] [stderr] Downloaded predicates v2.0.3 [INFO] [stderr] Downloaded assert_cmd v2.0.2 [INFO] [stderr] Downloaded num-complex v0.4.0 [INFO] [stderr] Downloaded bzip2 v0.4.3 [INFO] [stderr] Downloaded xz2 v0.1.6 [INFO] [stderr] Downloaded crossbeam-epoch v0.9.5 [INFO] [stderr] Downloaded pkg-config v0.3.22 [INFO] [stderr] Downloaded noodles-bgzf v0.31.0 [INFO] [stderr] Downloaded cc v1.0.71 [INFO] [stderr] Downloaded serde v1.0.185 [INFO] [stderr] Downloaded noodles-fasta v0.40.0 [INFO] [stderr] Downloaded niffler v2.3.2 [INFO] [stderr] Downloaded itertools v0.10.1 [INFO] [stderr] Downloaded clap v3.1.18 [INFO] [stderr] Downloaded ndarray v0.15.3 [INFO] [stderr] Downloaded syn v1.0.81 [INFO] [stderr] Downloaded bstr v1.9.1 [INFO] [stderr] Downloaded unicode-width v0.1.13 [INFO] [stderr] Downloaded libc v0.2.105 [INFO] [stderr] Downloaded lzma-sys v0.1.17 [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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+350d0ef0ec0493e6d21cfb265cb8211a0e74d766" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] e2b5c5c06fa39e825f37ee98c72a71f57c81cf01c77f387a2b4b6ddd62ee0f62 [INFO] running `Command { std: "docker" "start" "-a" "e2b5c5c06fa39e825f37ee98c72a71f57c81cf01c77f387a2b4b6ddd62ee0f62", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "e2b5c5c06fa39e825f37ee98c72a71f57c81cf01c77f387a2b4b6ddd62ee0f62", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "e2b5c5c06fa39e825f37ee98c72a71f57c81cf01c77f387a2b4b6ddd62ee0f62", kill_on_drop: false }` [INFO] [stdout] e2b5c5c06fa39e825f37ee98c72a71f57c81cf01c77f387a2b4b6ddd62ee0f62 [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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+350d0ef0ec0493e6d21cfb265cb8211a0e74d766" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] accd2c2cef6d3abe33e9ea68af53bcd4e0e1431d1fc9bb1f1f0bade9cb21d613 [INFO] running `Command { std: "docker" "start" "-a" "accd2c2cef6d3abe33e9ea68af53bcd4e0e1431d1fc9bb1f1f0bade9cb21d613", kill_on_drop: false }` [INFO] [stderr] Compiling autocfg v1.0.1 [INFO] [stderr] Compiling libc v0.2.105 [INFO] [stderr] Compiling proc-macro2 v1.0.32 [INFO] [stderr] Compiling cc v1.0.71 [INFO] [stderr] Compiling syn v1.0.81 [INFO] [stderr] Compiling pkg-config v0.3.22 [INFO] [stderr] Compiling crc32fast v1.2.1 [INFO] [stderr] Compiling crossbeam-epoch v0.9.5 [INFO] [stderr] Compiling adler v1.0.2 [INFO] [stderr] Compiling aho-corasick v0.7.18 [INFO] [stderr] Compiling portable-atomic v1.6.0 [INFO] [stderr] Compiling either v1.6.1 [INFO] [stderr] Compiling regex-syntax v0.6.25 [INFO] [stderr] Compiling crossbeam-channel v0.5.13 [INFO] [stderr] Compiling anstyle-parse v0.2.4 [INFO] [stderr] Compiling bstr v1.9.1 [INFO] [stderr] Compiling anstyle v1.0.7 [INFO] [stderr] Compiling colorchoice v1.0.1 [INFO] [stderr] Compiling bytes v1.6.0 [INFO] [stderr] Compiling heck v0.4.0 [INFO] [stderr] Compiling unicode-width v0.1.13 [INFO] [stderr] Compiling anstyle-query v1.1.0 [INFO] [stderr] Compiling os_str_bytes v6.1.0 [INFO] [stderr] Compiling is_terminal_polyfill v1.70.0 [INFO] [stderr] Compiling miniz_oxide v0.4.4 [INFO] [stderr] Compiling memoffset v0.6.4 [INFO] [stderr] Compiling num-traits v0.2.14 [INFO] [stderr] Compiling indexmap v1.7.0 [INFO] [stderr] Compiling num-integer v0.1.44 [INFO] [stderr] Compiling log v0.4.21 [INFO] [stderr] Compiling anyhow v1.0.44 [INFO] [stderr] Compiling clap_lex v0.2.0 [INFO] [stderr] Compiling anstream v0.6.14 [INFO] [stderr] Compiling matrixmultiply v0.3.1 [INFO] [stderr] Compiling noodles-core v0.15.0 [INFO] [stderr] Compiling quote v1.0.10 [INFO] [stderr] Compiling console v0.15.8 [INFO] [stderr] Compiling atty v0.2.14 [INFO] [stderr] Compiling humantime v2.1.0 [INFO] [stderr] Compiling textwrap v0.15.0 [INFO] [stderr] Compiling number_prefix v0.4.0 [INFO] [stderr] Compiling crossbeam-deque v0.8.1 [INFO] [stderr] Compiling itertools v0.13.0 [INFO] [stderr] Compiling lzma-sys v0.1.17 [INFO] [stderr] Compiling bzip2-sys v0.1.11+1.0.8 [INFO] [stderr] Compiling rayon-core v1.12.1 [INFO] [stderr] Compiling flate2 v1.0.22 [INFO] [stderr] Compiling xz2 v0.1.6 [INFO] [stderr] Compiling proc-macro-error-attr v1.0.4 [INFO] [stderr] Compiling regex v1.5.4 [INFO] [stderr] Compiling noodles-bgzf v0.31.0 [INFO] [stderr] Compiling rayon v1.10.0 [INFO] [stderr] Compiling num-complex v0.4.0 [INFO] [stderr] Compiling noodles-fasta v0.40.0 [INFO] [stderr] Compiling bzip2 v0.4.3 [INFO] [stderr] Compiling ndarray v0.15.3 [INFO] [stderr] Compiling env_filter v0.1.0 [INFO] [stderr] Compiling env_logger v0.11.3 [INFO] [stderr] Compiling proc-macro-error v1.0.4 [INFO] [stderr] Compiling thiserror-impl v1.0.30 [INFO] [stderr] Compiling clap_derive v3.1.18 [INFO] [stderr] Compiling indicatif v0.17.8 [INFO] [stderr] Compiling thiserror v1.0.30 [INFO] [stderr] Compiling bgzip v0.2.1 [INFO] [stderr] Compiling niffler v2.3.2 [INFO] [stderr] Compiling clap v3.1.18 [INFO] [stderr] Compiling psdm v0.3.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 23.17s [INFO] running `Command { std: "docker" "inspect" "accd2c2cef6d3abe33e9ea68af53bcd4e0e1431d1fc9bb1f1f0bade9cb21d613", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "accd2c2cef6d3abe33e9ea68af53bcd4e0e1431d1fc9bb1f1f0bade9cb21d613", kill_on_drop: false }` [INFO] [stdout] accd2c2cef6d3abe33e9ea68af53bcd4e0e1431d1fc9bb1f1f0bade9cb21d613 [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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+350d0ef0ec0493e6d21cfb265cb8211a0e74d766" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 7237dccf8b3724b86dc8d4e3ae4c87a59df6913e9dcd1038fdfd9aa92a936123 [INFO] running `Command { std: "docker" "start" "-a" "7237dccf8b3724b86dc8d4e3ae4c87a59df6913e9dcd1038fdfd9aa92a936123", kill_on_drop: false }` [INFO] [stderr] Compiling getrandom v0.2.3 [INFO] [stderr] Compiling predicates-core v1.0.2 [INFO] [stderr] Compiling ppv-lite86 v0.2.15 [INFO] [stderr] Compiling doc-comment v0.3.3 [INFO] [stderr] Compiling itertools v0.10.1 [INFO] [stderr] Compiling difflib v0.4.0 [INFO] [stderr] Compiling termtree v0.2.3 [INFO] [stderr] Compiling bstr v0.2.17 [INFO] [stderr] Compiling wait-timeout v0.2.0 [INFO] [stderr] Compiling predicates-tree v1.0.4 [INFO] [stderr] Compiling rand_core v0.6.3 [INFO] [stderr] Compiling rand_chacha v0.3.1 [INFO] [stderr] Compiling rand v0.8.4 [INFO] [stderr] Compiling predicates v2.0.3 [INFO] [stderr] Compiling tempfile v3.2.0 [INFO] [stderr] Compiling assert_cmd v2.0.2 [INFO] [stderr] Compiling psdm v0.3.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 4.18s [INFO] running `Command { std: "docker" "inspect" "7237dccf8b3724b86dc8d4e3ae4c87a59df6913e9dcd1038fdfd9aa92a936123", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "7237dccf8b3724b86dc8d4e3ae4c87a59df6913e9dcd1038fdfd9aa92a936123", kill_on_drop: false }` [INFO] [stdout] 7237dccf8b3724b86dc8d4e3ae4c87a59df6913e9dcd1038fdfd9aa92a936123 [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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+350d0ef0ec0493e6d21cfb265cb8211a0e74d766" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] 846550a7ac4a5feb0e0937bd83500f52dba43c21809adce6f4076fba892b244e [INFO] running `Command { std: "docker" "start" "-a" "846550a7ac4a5feb0e0937bd83500f52dba43c21809adce6f4076fba892b244e", kill_on_drop: false }` [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.11s [INFO] [stderr] Running unittests src/lib.rs (/opt/rustwide/target/debug/deps/psdm-f14c348b227476aa) [INFO] [stdout] [INFO] [stdout] running 15 tests [INFO] [stdout] test tests::alignments_all_have_same_length ... ok [INFO] [stdout] test tests::alignments_do_not_all_have_same_length ... ok [INFO] [stdout] test tests::alignments_sorted_by_id ... ok [INFO] [stdout] test tests::alignments_do_not_have_same_length_as_starting_seqlen ... ok [INFO] [stdout] test tests::argsort ... ok [INFO] [stdout] test tests::argsort_with_str ... ok [INFO] [stdout] test tests::argsort_on_empty ... ok [INFO] [stdout] test tests::sort_by_index ... ok [INFO] [stdout] test tests::test_hamming_distance ... ok [INFO] [stdout] test tests::transform_ignore_case ... ok [INFO] [stdout] test tests::transform_ignore_chars_case_insensitive ... ok [INFO] [stdout] test tests::transform_ignore_chars ... ok [INFO] [stdout] test tests::transform_ignore_chars_case_sensitive ... ok [INFO] [stdout] test tests::transform_preserve_case ... ok [INFO] [stderr] Running unittests src/main.rs (/opt/rustwide/target/debug/deps/psdm-ffd3c56f38ccc9fe) [INFO] [stdout] test tests::parse_chars ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 15 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.15s [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] running 2 tests [INFO] [stdout] test tests::check_path_it_does ... ok [INFO] [stdout] test tests::check_path_exists_it_doesnt ... ok [INFO] [stderr] Running tests/main.rs (/opt/rustwide/target/debug/deps/main-a0cafbe2fa9f994a) [INFO] [stdout] [INFO] [stdout] test result: ok. 2 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.01s [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] running 15 tests [INFO] [stdout] test intra_alignment_with_defaults_long_form_sorted ... ok [INFO] [stdout] test alignment_is_not_fasta ... ok [INFO] [stdout] test alignment_files_do_not_have_same_length ... ok [INFO] [stdout] test intra_alignment_with_ignore_case_ignore_characters ... ok [INFO] [stdout] test alignment_seqs_do_not_have_same_length ... ok [INFO] [stdout] test input_file_does_not_exist ... ok [INFO] [stdout] test intra_alignment_with_ignore_case_ignore_characters_sorted ... ok [INFO] [stdout] test inter_alignment_with_tab_delim ... ok [INFO] [stdout] test trying_to_create_output_in_nonexistent_dir ... ok [INFO] [stdout] test intra_alignment_with_defaults_long_form ... ok [INFO] [stdout] test more_than_two_input_files_fails ... ok [INFO] [stdout] test intra_alignment_with_ignore_case_ignore_no_characters ... ok [INFO] [stdout] test intra_alignment_with_defaults ... ok [INFO] [stdout] test intra_alignment_with_use_case_ignore_characters ... ok [INFO] [stdout] test inter_alignment_in_long_form_sorted ... ok [INFO] [stderr] Doc-tests psdm [INFO] [stdout] [INFO] [stdout] test result: ok. 15 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.09s [INFO] [stdout] [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] running `Command { std: "docker" "inspect" "846550a7ac4a5feb0e0937bd83500f52dba43c21809adce6f4076fba892b244e", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "846550a7ac4a5feb0e0937bd83500f52dba43c21809adce6f4076fba892b244e", kill_on_drop: false }` [INFO] [stdout] 846550a7ac4a5feb0e0937bd83500f52dba43c21809adce6f4076fba892b244e