[INFO] cloning repository https://github.com/alejandrogzi/gxt2bed [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/alejandrogzi/gxt2bed" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Falejandrogzi%2Fgxt2bed", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Falejandrogzi%2Fgxt2bed'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 24b8ffe1a101624d90a76855cb733b781e6f72bc [INFO] testing alejandrogzi/gxt2bed against 1.99.0-beta.8 for beta-1.100-2 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Falejandrogzi%2Fgxt2bed" "/workspace/builds/worker-2-tc1/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-2-tc1/source'... [INFO] [stderr] done. [INFO] started tweaking git repo https://github.com/alejandrogzi/gxt2bed [INFO] finished tweaking git repo https://github.com/alejandrogzi/gxt2bed [INFO] tweaked toml for git repo https://github.com/alejandrogzi/gxt2bed written to /workspace/builds/worker-2-tc1/source/Cargo.toml [INFO] validating manifest of git repo https://github.com/alejandrogzi/gxt2bed on toolchain 1.99.0-beta.8 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.99.0-beta.8" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate git repo https://github.com/alejandrogzi/gxt2bed 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" "+1.99.0-beta.8" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Updating crates.io index [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded tempfile v3.24.0 [INFO] [stderr] Downloaded time-core v0.1.7 [INFO] [stderr] Downloaded clap_lex v0.7.7 [INFO] [stderr] Downloaded simple_logger v5.1.0 [INFO] [stderr] Downloaded quote v1.0.43 [INFO] [stderr] Downloaded deranged v0.5.5 [INFO] [stderr] Downloaded memmap2 v0.9.9 [INFO] [stderr] Downloaded simd-adler32 v0.3.8 [INFO] [stderr] Downloaded find-msvc-tools v0.1.8 [INFO] [stderr] Downloaded time-macros v0.2.25 [INFO] [stderr] Downloaded zstd-safe v7.2.4 [INFO] [stderr] Downloaded colored v3.1.1 [INFO] [stderr] Downloaded zstd v0.13.3 [INFO] [stderr] Downloaded bzip2 v0.6.1 [INFO] [stderr] Downloaded proc-macro2 v1.0.105 [INFO] [stderr] Downloaded libbz2-rs-sys v0.2.2 [INFO] [stderr] Downloaded clap v4.5.54 [INFO] [stderr] Downloaded cc v1.2.53 [INFO] [stderr] Downloaded flate2 v1.1.8 [INFO] [stderr] Downloaded syn v2.0.114 [INFO] [stderr] Downloaded clap_builder v4.5.54 [INFO] [stderr] Downloaded time v0.3.45 [INFO] [stderr] Downloaded zstd-sys v2.0.16+zstd.1.5.7 [INFO] [stderr] Downloaded libc v0.2.180 [INFO] [stderr] Downloaded genepred v0.0.14 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc1/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@sha256:3111399a4047eeb3a02b7a90e478d715f38a8c6669b5c4b49d30a17385265909" "sleep" "infinity", kill_on_drop: false }` [INFO] [stdout] eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335 [INFO] running `Command { std: "docker" "start" "eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335", 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" "eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335", 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" "eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.180 [INFO] [stderr] Compiling crossbeam-utils v0.8.21 [INFO] [stderr] Compiling find-msvc-tools v0.1.8 [INFO] [stderr] Compiling proc-macro2 v1.0.105 [INFO] [stderr] Compiling shlex v1.3.0 [INFO] [stderr] Compiling quote v1.0.43 [INFO] [stderr] Compiling pkg-config v0.3.32 [INFO] [stderr] Compiling unicode-ident v1.0.22 [INFO] [stderr] Compiling cfg-if v1.0.4 [INFO] [stderr] Compiling rayon-core v1.13.0 [INFO] [stderr] Compiling utf8parse v0.2.2 [INFO] [stderr] Compiling zstd-safe v7.2.4 [INFO] [stderr] Compiling crc32fast v1.5.0 [INFO] [stderr] Compiling getrandom v0.3.4 [INFO] [stderr] Compiling rustix v1.1.3 [INFO] [stderr] Compiling is_terminal_polyfill v1.70.2 [INFO] [stderr] Compiling either v1.15.0 [INFO] [stderr] Compiling anstyle-parse v0.2.7 [INFO] [stderr] Compiling colorchoice v1.0.4 [INFO] [stderr] Compiling anstyle-query v1.1.5 [INFO] [stderr] Compiling simd-adler32 v0.3.8 [INFO] [stderr] Compiling anstyle v1.0.13 [INFO] [stderr] Compiling time-core v0.1.7 [INFO] [stderr] Compiling adler2 v2.0.1 [INFO] [stderr] Compiling num-conv v0.1.0 [INFO] [stderr] Compiling powerfmt v0.2.0 [INFO] [stderr] Compiling thiserror v2.0.18 [INFO] [stderr] Compiling miniz_oxide v0.8.9 [INFO] [stderr] Compiling heck v0.5.0 [INFO] [stderr] Compiling strsim v0.11.1 [INFO] [stderr] Compiling clap_lex v0.7.7 [INFO] [stderr] Compiling anstream v0.6.21 [INFO] [stderr] Compiling num_threads v0.1.7 [INFO] [stderr] Compiling bitflags v2.10.0 [INFO] [stderr] Compiling linux-raw-sys v0.11.0 [INFO] [stderr] Compiling libbz2-rs-sys v0.2.2 [INFO] [stderr] Compiling itoa v1.0.17 [INFO] [stderr] Compiling time-macros v0.2.25 [INFO] [stderr] Compiling deranged v0.5.5 [INFO] [stderr] Compiling fastrand v2.3.0 [INFO] [stderr] Compiling clap_builder v4.5.54 [INFO] [stderr] Compiling flate2 v1.1.8 [INFO] [stderr] Compiling allocator-api2 v0.2.21 [INFO] [stderr] Compiling equivalent v1.0.2 [INFO] [stderr] Compiling crossbeam-epoch v0.9.18 [INFO] [stderr] Compiling once_cell v1.21.3 [INFO] [stderr] Compiling memchr v2.7.6 [INFO] [stderr] Compiling foldhash v0.2.0 [INFO] [stderr] Compiling syn v2.0.114 [INFO] [stderr] Compiling colored v3.1.1 [INFO] [stderr] Compiling log v0.4.29 [INFO] [stderr] Compiling indoc v2.0.7 [INFO] [stderr] Compiling bzip2 v0.6.1 [INFO] [stderr] Compiling crossbeam-deque v0.8.6 [INFO] [stderr] Compiling jobserver v0.1.34 [INFO] [stderr] Compiling memmap2 v0.9.9 [INFO] [stderr] Compiling num_cpus v1.17.0 [INFO] [stderr] Compiling cc v1.2.53 [INFO] [stderr] Compiling rayon v1.11.0 [INFO] [stderr] Compiling time v0.3.45 [INFO] [stderr] Compiling zstd-sys v2.0.16+zstd.1.5.7 [INFO] [stderr] Compiling tempfile v3.24.0 [INFO] [stderr] Compiling simple_logger v5.1.0 [INFO] [stderr] Compiling clap_derive v4.5.49 [INFO] [stderr] Compiling thiserror-impl v2.0.18 [INFO] [stderr] Compiling hashbrown v0.16.1 [INFO] [stderr] Compiling clap v4.5.54 [INFO] [stderr] Compiling zstd v0.13.3 [INFO] [stderr] Compiling genepred v0.0.14 [INFO] [stderr] Compiling gxf2bed v0.3.3 (/opt/rustwide/workdir) [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 30.08s [INFO] running `Command { std: "docker" "inspect" "eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335", 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" "eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stderr] Compiling gxf2bed v0.3.3 (/opt/rustwide/workdir) [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 1.68s [INFO] running `Command { std: "docker" "inspect" "eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335", 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" "eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "test" "--frozen", kill_on_drop: false }` [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.12s [INFO] [stderr] Running unittests src/lib.rs (/opt/rustwide/target/debug/deps/gxf2bed-bc3933400af35c06) [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] Running unittests src/main.rs (/opt/rustwide/target/debug/deps/gxf2bed-27150593e6c6a339) [INFO] [stderr] Running tests/convert_gff.rs (/opt/rustwide/target/debug/deps/convert_gff-b66b4a1ff7a1347b) [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] [stdout] [INFO] [stdout] running 3 tests [INFO] [stdout] test convert_gff_gene_parent_uses_configured_parent_attribute ... ok [INFO] [stdout] test convert_gff_to_bed12 ... ok [INFO] [stdout] test convert_gff_mrna_parent_uses_configured_parent_attribute ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 3 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.04s [INFO] [stdout] [INFO] [stderr] Running tests/convert_gtf.rs (/opt/rustwide/target/debug/deps/convert_gtf-e9b6082f2ce3540d) [INFO] [stdout] [INFO] [stdout] running 1 test [INFO] [stdout] test convert_gtf_to_bed12 ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 1 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Running tests/convert_gzip.rs (/opt/rustwide/target/debug/deps/convert_gzip-e810386d7b4dee89) [INFO] [stdout] running 1 test [INFO] [stdout] test convert_gzipped_gtf ... ok [INFO] [stderr] Running tests/detect.rs (/opt/rustwide/target/debug/deps/detect-a4f1ed0867d35adb) [INFO] [stdout] [INFO] [stdout] test result: ok. 1 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.01s [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] running 4 tests [INFO] [stdout] test detect_plain_gtf ... ok [INFO] [stdout] test detect_gff3_gz ... ok [INFO] [stdout] test detect_rejects_unknown ... ok [INFO] [stdout] test detect_gtf_zstd ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 4 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s [INFO] [stdout] [INFO] [stderr] Doc-tests gxf2bed [INFO] [stdout] [INFO] [stdout] running 30 tests [INFO] [stdout] test src/cli.rs - cli::BedType::default (line 137) ... ignored [INFO] [stdout] test src/cli.rs - cli::BedType::fmt (line 199) ... ignored [INFO] [stdout] test src/cli.rs - cli::BedType::from_str (line 166) ... ignored [INFO] [stdout] test src/config.rs - config::Config::from_args (line 42) ... ignored [INFO] [stdout] test src/convert.rs - convert::Gff::from_gxf_with_options (line 556) ... ignored [INFO] [stdout] test src/convert.rs - convert::Gff::from_mmap_with_options (line 581) ... ignored [INFO] [stdout] test src/convert.rs - convert::Gtf::from_gxf_with_options (line 504) ... ignored [INFO] [stdout] test src/convert.rs - convert::Gtf::from_mmap_with_options (line 529) ... ignored [INFO] [stdout] test src/convert.rs - convert::GxfReader::from_gxf_with_options (line 456) ... ignored [INFO] [stdout] test src/convert.rs - convert::GxfReader::from_mmap_with_options (line 479) ... ignored [INFO] [stdout] test src/convert.rs - convert::build_reader_options (line 245) ... ignored [INFO] [stdout] test src/convert.rs - convert::build_writer_options (line 295) ... ignored [INFO] [stdout] test src/convert.rs - convert::open_reader (line 213) ... ignored [INFO] [stdout] test src/convert.rs - convert::process_input (line 109) ... ignored [INFO] [stdout] test src/convert.rs - convert::process_reader (line 162) ... ignored [INFO] [stdout] test src/convert.rs - convert::render_chunk (line 334) ... ignored [INFO] [stdout] test src/convert.rs - convert::run (line 41) ... ignored [INFO] [stdout] test src/convert.rs - convert::write_output (line 422) ... ignored [INFO] [stdout] test src/convert.rs - convert::write_record (line 378) ... ignored [INFO] [stdout] test src/detect.rs - detect::Compression::is_compressed (line 29) ... ignored [INFO] [stdout] test src/detect.rs - detect::compression_from_extension (line 171) ... ignored [INFO] [stdout] test src/detect.rs - detect::detect_input_kind (line 68) ... ignored [INFO] [stdout] test src/detect.rs - detect::extension_lowercase (line 113) ... ignored [INFO] [stdout] test src/detect.rs - detect::format_from_extension (line 141) ... ignored [INFO] [stdout] test src/detect.rs - detect::nested_extension (line 202) ... ignored [INFO] [stdout] test src/lib.rs - (line 11) ... ignored [INFO] [stdout] test src/lib.rs - (line 37) ... ignored [INFO] [stdout] test src/lib.rs - (line 58) ... ignored [INFO] [stdout] test src/lib.rs - (line 79) ... ignored [INFO] [stdout] test src/memory.rs - memory::max_mem_usage_mb (line 15) ... ignored [INFO] [stdout] [INFO] [stdout] test result: ok. 0 passed; 0 failed; 30 ignored; 0 measured; 0 filtered out; finished in 0.00s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335", kill_on_drop: false }` [INFO] [stdout] eb441bab0cd15ac715164efc82cf700a0524eb6810b3754ce41738ce32a80335