[INFO] fetching crate chainfile 0.3.0... [INFO] testing chainfile-0.3.0 against try#c2e32f1c9652b13ed99608599c1e855462f421f3 for pr-146098-7 [INFO] extracting crate chainfile 0.3.0 into /workspace/builds/worker-1-tc2/source [INFO] started tweaking crates.io crate chainfile 0.3.0 [INFO] removed 0 missing examples [INFO] finished tweaking crates.io crate chainfile 0.3.0 [INFO] tweaked toml for crates.io crate chainfile 0.3.0 written to /workspace/builds/worker-1-tc2/source/Cargo.toml [INFO] validating manifest of crates.io crate chainfile 0.3.0 on toolchain c2e32f1c9652b13ed99608599c1e855462f421f3 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+c2e32f1c9652b13ed99608599c1e855462f421f3" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate crates.io crate chainfile 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" "+c2e32f1c9652b13ed99608599c1e855462f421f3" "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@sha256:4848fb76d95f26979359cc7e45710b1dbc8f3acb7aeedee7c460d7702230f228" "/opt/rustwide/cargo-home/bin/cargo" "+c2e32f1c9652b13ed99608599c1e855462f421f3" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 6d076c6dc8e28ab507129adce1f5c5aaad98cc2d7b35bc5b12e79cd8cf52fe99 [INFO] running `Command { std: "docker" "start" "-a" "6d076c6dc8e28ab507129adce1f5c5aaad98cc2d7b35bc5b12e79cd8cf52fe99", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "6d076c6dc8e28ab507129adce1f5c5aaad98cc2d7b35bc5b12e79cd8cf52fe99", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "6d076c6dc8e28ab507129adce1f5c5aaad98cc2d7b35bc5b12e79cd8cf52fe99", kill_on_drop: false }` [INFO] [stdout] 6d076c6dc8e28ab507129adce1f5c5aaad98cc2d7b35bc5b12e79cd8cf52fe99 [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" "-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@sha256:4848fb76d95f26979359cc7e45710b1dbc8f3acb7aeedee7c460d7702230f228" "/opt/rustwide/cargo-home/bin/cargo" "+c2e32f1c9652b13ed99608599c1e855462f421f3" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] f2a992c888e59807fd3bdf6683b464fed0dd01b26309a17c5e6a43a4eb17b1a0 [INFO] running `Command { std: "docker" "start" "-a" "f2a992c888e59807fd3bdf6683b464fed0dd01b26309a17c5e6a43a4eb17b1a0", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro2 v1.0.92 [INFO] [stderr] Compiling thiserror v2.0.9 [INFO] [stderr] Compiling num-traits v0.2.19 [INFO] [stderr] Compiling omics-core v0.1.0 [INFO] [stderr] Compiling log v0.4.22 [INFO] [stderr] Compiling nonempty v0.9.0 [INFO] [stderr] Compiling tracing-core v0.1.32 [INFO] [stderr] Compiling flate2 v1.0.34 [INFO] [stderr] Compiling tracing-log v0.2.0 [INFO] [stderr] Compiling quote v1.0.37 [INFO] [stderr] Compiling syn v2.0.94 [INFO] [stderr] Compiling rust-lapper v1.1.0 [INFO] [stderr] Compiling thiserror-impl v2.0.9 [INFO] [stderr] Compiling omics-coordinate v0.2.0 [INFO] [stderr] Compiling omics v0.2.0 [INFO] [stderr] Compiling chainfile v0.3.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 6.33s [INFO] running `Command { std: "docker" "inspect" "f2a992c888e59807fd3bdf6683b464fed0dd01b26309a17c5e6a43a4eb17b1a0", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "f2a992c888e59807fd3bdf6683b464fed0dd01b26309a17c5e6a43a4eb17b1a0", kill_on_drop: false }` [INFO] [stdout] f2a992c888e59807fd3bdf6683b464fed0dd01b26309a17c5e6a43a4eb17b1a0 [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" "-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@sha256:4848fb76d95f26979359cc7e45710b1dbc8f3acb7aeedee7c460d7702230f228" "/opt/rustwide/cargo-home/bin/cargo" "+c2e32f1c9652b13ed99608599c1e855462f421f3" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] d96c87ce0a62e0ff758ca11a582b812fc0d4791dbb7eed3626e75e2ca6653e2b [INFO] running `Command { std: "docker" "start" "-a" "d96c87ce0a62e0ff758ca11a582b812fc0d4791dbb7eed3626e75e2ca6653e2b", kill_on_drop: false }` [INFO] [stderr] Compiling crossbeam-utils v0.8.20 [INFO] [stderr] Compiling syn v1.0.109 [INFO] [stderr] Compiling bytes v1.7.2 [INFO] [stderr] Compiling proc-macro-error-attr v1.0.4 [INFO] [stderr] Compiling proc-macro-error v1.0.4 [INFO] [stderr] Compiling bstr v1.11.3 [INFO] [stderr] Compiling bytecount v0.6.8 [INFO] [stderr] Compiling papergrid v0.12.0 [INFO] [stderr] Compiling noodles-core v0.15.0 [INFO] [stderr] Compiling crossbeam-channel v0.5.13 [INFO] [stderr] Compiling noodles-bgzf v0.34.0 [INFO] [stderr] Compiling noodles-fasta v0.46.0 [INFO] [stderr] Compiling noodles v0.87.0 [INFO] [stderr] Compiling tabled_derive v0.8.0 [INFO] [stderr] Compiling tabled v0.16.0 [INFO] [stderr] Compiling chainfile v0.3.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 14.09s [INFO] running `Command { std: "docker" "inspect" "d96c87ce0a62e0ff758ca11a582b812fc0d4791dbb7eed3626e75e2ca6653e2b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "d96c87ce0a62e0ff758ca11a582b812fc0d4791dbb7eed3626e75e2ca6653e2b", kill_on_drop: false }` [INFO] [stdout] d96c87ce0a62e0ff758ca11a582b812fc0d4791dbb7eed3626e75e2ca6653e2b [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" "-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@sha256:4848fb76d95f26979359cc7e45710b1dbc8f3acb7aeedee7c460d7702230f228" "/opt/rustwide/cargo-home/bin/cargo" "+c2e32f1c9652b13ed99608599c1e855462f421f3" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] fe2d5ff985cd8694e2d476c8b1c3000b009c0cf8219ffa7a15c66bd16e17e74c [INFO] running `Command { std: "docker" "start" "-a" "fe2d5ff985cd8694e2d476c8b1c3000b009c0cf8219ffa7a15c66bd16e17e74c", kill_on_drop: false }` [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.19s [INFO] [stderr] Running unittests src/lib.rs (/opt/rustwide/target/debug/deps/chainfile-d1babb4ed81a78a3) [INFO] [stdout] [INFO] [stdout] running 52 tests [INFO] [stdout] test alignment::section::builder::tests::fails_with_no_header ... ok [INFO] [stdout] test alignment::section::builder::tests::fails_with_no_data ... ok [INFO] [stdout] test alignment::section::builder::tests::fails_with_multiple_headers ... ok [INFO] [stdout] test alignment::section::data::tests::invalid_dq ... ok [INFO] [stdout] test alignment::section::data::tests::invalid_nonterminating_dq ... ok [INFO] [stdout] test alignment::section::data::tests::invalid_size ... ok [INFO] [stdout] test alignment::section::data::tests::invalid_terminating_dt ... ok [INFO] [stdout] test alignment::section::data::tests::terminating_alignment_data_display ... ok [INFO] [stdout] test alignment::section::header::sequence::tests::invalid_alignment_start ... ok [INFO] [stdout] test alignment::section::header::sequence::tests::invalid_alignment_end ... ok [INFO] [stdout] test alignment::section::header::sequence::tests::invalid_chromosome_size ... ok [INFO] [stdout] test alignment::section::header::sequence::tests::try_new ... ok [INFO] [stdout] test alignment::section::header::sequence::tests::invalid_strand ... ok [INFO] [stdout] test alignment::section::header::tests::display ... ok [INFO] [stdout] test alignment::section::header::sequence::tests::display ... ok [INFO] [stdout] test alignment::section::header::tests::end_is_greater_than_size_query ... ok [INFO] [stdout] test alignment::section::data::tests::invalid_terminating_dq ... ok [INFO] [stdout] test alignment::section::data::tests::nonterminating_alignment_data ... ok [INFO] [stdout] test alignment::section::data::tests::terminating_alignment_data ... ok [INFO] [stdout] test alignment::section::header::tests::incorrect_number_of_fields ... ok [INFO] [stdout] test alignment::section::header::tests::invalid_id ... ok [INFO] [stdout] test alignment::section::header::tests::invalid_prefix ... ok [INFO] [stdout] test alignment::section::header::tests::invalid_query_sequence ... ok [INFO] [stdout] test alignment::section::header::tests::invalid_reference_sequence ... ok [INFO] [stdout] test alignment::section::data::tests::invalid_nonterminating_dt ... ok [INFO] [stdout] test alignment::section::data::tests::invalid_dt ... ok [INFO] [stdout] test alignment::section::data::tests::nonterminating_alignment_data_display ... ok [INFO] [stdout] test alignment::section::data::tests::invalid_number_of_fields ... ok [INFO] [stdout] test alignment::section::header::tests::end_is_greater_than_size_reference ... ok [INFO] [stdout] test alignment::section::header::tests::invalid_score ... ok [INFO] [stdout] test alignment::section::tests::test_invalid_sections_abrupt_end_in_section ... ok [INFO] [stdout] test alignment::section::tests::test_invalid_sections_header_in_section ... ok [INFO] [stdout] test alignment::section::tests::test_valid_sections ... ok [INFO] [stdout] test liftover::machine::tests::test_nonexistent_positive_strand_interval_liftover ... ok [INFO] [stdout] test liftover::machine::tests::test_valid_negative_to_positive_strand_liftover ... ok [INFO] [stdout] test liftover::machine::tests::test_valid_positive_strand_liftover ... ok [INFO] [stdout] test liftover::machine::tests::test_valid_positive_to_negative_strand_liftover ... ok [INFO] [stdout] test liftover::machine::tests::test_valid_negative_strand_liftover ... ok [INFO] [stdout] test liftover::stepthrough::interval_pair::tests::interval_sizes_dont_match ... ok [INFO] [stdout] test liftover::stepthrough::tests::test_it_correctly_steps_through_a_valid_chain_file ... ok [INFO] [stdout] test liftover::stepthrough::tests::test_it_errors_when_there_is_an_alignment_issue ... ok [INFO] [stdout] test line::tests::invalid_alignment_data_line ... ok [INFO] [stdout] test line::tests::valid_header_line ... ok [INFO] [stdout] test line::tests::valid_terminating_alignment_data_line ... ok [INFO] [stdout] test alignment::section::header::tests::parse ... ok [INFO] [stdout] test line::tests::valid_nonterminating_alignment_data_line ... ok [INFO] [stdout] test alignment::section::tests::test_invalid_sections_blank_line_in_section ... ok [INFO] [stdout] test liftover::stepthrough::interval_pair::tests::valid_interval_pair ... ok [INFO] [stdout] test line::tests::invalid_header_line ... ok [INFO] [stdout] test alignment::section::tests::test_invalid_sections_alignment_data_between_sections ... ok [INFO] [stdout] test reader::tests::test_read_line ... ok [INFO] [stdout] test liftover::machine::tests::test_nonexistent_negative_strand_interval_liftover ... ok [INFO] [stderr] Doc-tests chainfile [INFO] [stdout] [INFO] [stdout] test result: ok. 52 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.24s [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] running 42 tests [INFO] [stdout] test src/alignment/section/header.rs - alignment::section::header::Record::reference_sequence (line 142) ... ok [INFO] [stdout] test src/alignment/section/data.rs - alignment::section::data::Record::dq (line 213) ... ok [INFO] [stdout] test src/alignment/section/builder.rs - alignment::section::builder::Builder::push_data (line 112) ... ok [INFO] [stdout] test src/alignment/section.rs - alignment::section::Section::header (line 33) ... ok [INFO] [stdout] test src/alignment/section/data.rs - alignment::section::data::Record::size (line 179) ... ok [INFO] [stdout] test src/alignment/section/data.rs - alignment::section::data::Record::try_new (line 132) ... ok [INFO] [stdout] test src/alignment/section/header.rs - alignment::section::header::Record::id (line 186) ... ok [INFO] [stdout] test src/alignment/section/header.rs - alignment::section::header::Record::score (line 126) ... ok [INFO] [stdout] test src/alignment/section/builder.rs - alignment::section::builder::Builder::header (line 89) ... ok [INFO] [stdout] test src/alignment/section/data.rs - alignment::section::data::Record::dt (line 196) ... ok [INFO] [stdout] test src/alignment/section.rs - alignment::section::Section::data (line 63) ... ok [INFO] [stdout] test src/alignment/section/header/sequence.rs - alignment::section::header::sequence::Sequence::alignment_start (line 211) ... ok [INFO] [stdout] test src/alignment/section.rs - alignment::section::Section::stepthrough (line 108) ... ok [INFO] [stdout] test src/alignment/section/header.rs - alignment::section::header::Record::query_sequence (line 164) ... ok [INFO] [stdout] test src/alignment/section/builder.rs - alignment::section::builder::Builder::try_build (line 138) ... ok [INFO] [stdout] test src/alignment/section/header/sequence.rs - alignment::section::header::sequence::Sequence::alignment_end (line 227) ... ok [INFO] [stdout] test src/alignment/section.rs - alignment::section::Section::stepthrough_with_data (line 157) ... ok [INFO] [stdout] test src/alignment/section/data.rs - alignment::section::data::Record::kind (line 229) ... ok [INFO] [stdout] test src/alignment/section/header/sequence.rs - alignment::section::header::sequence::Sequence::chromosome_name (line 162) ... ok [INFO] [stdout] test src/liftover/stepthrough/interval_pair.rs - liftover::stepthrough::interval_pair::ContiguousIntervalPair::into_parts (line 151) ... ok [INFO] [stdout] test src/alignment/section/header/sequence.rs - alignment::section::header::sequence::Sequence::chromosome_size (line 178) ... ok [INFO] [stdout] test src/alignment/section/header/sequence.rs - alignment::section::header::sequence::Sequence::try_from_str_parts (line 106) ... ok [INFO] [stdout] test src/alignment/section/header/sequence.rs - alignment::section::header::sequence::Sequence::strand (line 194) ... ok [INFO] [stdout] test src/liftover/stepthrough/interval_pair.rs - liftover::stepthrough::interval_pair::ContiguousIntervalPair::clamp (line 217) ... ok [INFO] [stdout] test src/liftover/stepthrough/interval_pair.rs - liftover::stepthrough::interval_pair::ContiguousIntervalPair::into_query (line 130) ... ok [INFO] [stdout] test src/alignment/section/header/sequence.rs - alignment::section::header::sequence::Sequence::interval (line 243) ... ok [INFO] [stdout] test src/reader.rs - reader::Reader::inner (line 64) ... ok [INFO] [stdout] test src/reader.rs - reader::Reader::inner_mut (line 81) ... ok [INFO] [stdout] test src/liftover/stepthrough/interval_pair.rs - liftover::stepthrough::interval_pair::ContiguousIntervalPair::try_new (line 45) ... ok [INFO] [stdout] test src/reader.rs - reader::Reader::new (line 52) ... ok [INFO] [stdout] test src/liftover/stepthrough/interval_pair.rs - liftover::stepthrough::interval_pair::ContiguousIntervalPair::liftover (line 174) ... ok [INFO] [stdout] test src/reader.rs - reader::Reader::lines (line 192) ... ok [INFO] [stdout] test src/reader.rs - reader::Reader::read_line_raw (line 122) ... ok [INFO] [stdout] test src/lib.rs - (line 49) ... ok [INFO] [stdout] test src/reader.rs - reader::Reader::into_inner (line 99) ... ok [INFO] [stdout] test src/liftover/stepthrough/interval_pair.rs - liftover::stepthrough::interval_pair::ContiguousIntervalPair::into_reference (line 90) ... ok [INFO] [stdout] test src/liftover/stepthrough/interval_pair.rs - liftover::stepthrough::interval_pair::ContiguousIntervalPair::reference (line 70) ... ok [INFO] [stdout] test src/reader.rs - reader::Reader::read_line (line 151) ... ok [INFO] [stdout] test src/liftover/stepthrough/interval_pair.rs - liftover::stepthrough::interval_pair::ContiguousIntervalPair::query (line 110) ... ok [INFO] [stdout] test src/liftover/machine/builder.rs - liftover::machine::builder::Builder::try_build_from (line 54) ... ok [INFO] [stdout] test src/reader.rs - reader::Reader::sections (line 226) ... ok [INFO] [stdout] test src/lib.rs - (line 100) ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 42 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 2.93s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "fe2d5ff985cd8694e2d476c8b1c3000b009c0cf8219ffa7a15c66bd16e17e74c", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "fe2d5ff985cd8694e2d476c8b1c3000b009c0cf8219ffa7a15c66bd16e17e74c", kill_on_drop: false }` [INFO] [stdout] fe2d5ff985cd8694e2d476c8b1c3000b009c0cf8219ffa7a15c66bd16e17e74c