[INFO] cloning repository https://github.com/wwood/mfqe [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/wwood/mfqe" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fwwood%2Fmfqe", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fwwood%2Fmfqe'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 71f9bfe7689b8715194b8f0b2b38373b903e39f6 [INFO] testing wwood/mfqe against beta-2021-09-08 for beta-1.56-1 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fwwood%2Fmfqe" "/workspace/builds/worker-13/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-13/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/wwood/mfqe on toolchain beta-2021-09-08 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta-2021-09-08" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/wwood/mfqe [INFO] finished tweaking git repo https://github.com/wwood/mfqe [INFO] tweaked toml for git repo https://github.com/wwood/mfqe written to /workspace/builds/worker-13/source/Cargo.toml [INFO] crate git repo https://github.com/wwood/mfqe already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta-2021-09-08" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded seq_io v0.3.1 [INFO] [stderr] Downloaded assert_cli v0.6.3 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/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:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2021-09-08" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] cac51f7891a81b209de6e49dd4dc5dcc37f6e14a69f03fae49ffb63b869fe19a [INFO] running `Command { std: "docker" "start" "-a" "cac51f7891a81b209de6e49dd4dc5dcc37f6e14a69f03fae49ffb63b869fe19a", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "cac51f7891a81b209de6e49dd4dc5dcc37f6e14a69f03fae49ffb63b869fe19a", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "cac51f7891a81b209de6e49dd4dc5dcc37f6e14a69f03fae49ffb63b869fe19a", kill_on_drop: false }` [INFO] [stdout] cac51f7891a81b209de6e49dd4dc5dcc37f6e14a69f03fae49ffb63b869fe19a [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/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=warn" "-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:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2021-09-08" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] fa971125007c15f8875c65ae36b062ac31753674907620735be669987f00e164 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `Command { std: "docker" "start" "-a" "fa971125007c15f8875c65ae36b062ac31753674907620735be669987f00e164", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.82 [INFO] [stderr] Compiling const_fn v0.4.5 [INFO] [stderr] Compiling syn v1.0.58 [INFO] [stderr] Compiling log v0.4.13 [INFO] [stderr] Compiling serde_derive v1.0.119 [INFO] [stderr] Compiling serde v1.0.119 [INFO] [stderr] Compiling regex-syntax v0.6.22 [INFO] [stderr] Compiling humantime v2.0.1 [INFO] [stderr] Compiling crossbeam-utils v0.8.1 [INFO] [stderr] Compiling memoffset v0.6.1 [INFO] [stderr] Compiling miniz_oxide v0.4.3 [INFO] [stderr] Compiling thread_local v1.1.0 [INFO] [stderr] Compiling buf_redux v0.8.4 [INFO] [stderr] Compiling atty v0.2.14 [INFO] [stderr] Compiling flate2 v1.0.19 [INFO] [stderr] Compiling regex v1.4.3 [INFO] [stderr] Compiling crossbeam-epoch v0.9.1 [INFO] [stderr] Compiling crossbeam-channel v0.5.0 [INFO] [stderr] Compiling crossbeam-queue v0.3.1 [INFO] [stderr] Compiling clap v2.33.3 [INFO] [stderr] Compiling crossbeam-deque v0.8.0 [INFO] [stderr] Compiling crossbeam v0.8.0 [INFO] [stderr] Compiling env_logger v0.8.2 [INFO] [stderr] Compiling seq_io v0.3.1 [INFO] [stderr] Compiling mfqe v0.5.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: multiple lines skipped by escaped newline [INFO] [stdout] --> src/main.rs:32:18 [INFO] [stdout] | [INFO] [stdout] 32 | \n\ [INFO] [stdout] | __________________^ [INFO] [stdout] 33 | | [INFO] [stdout] 34 | | Extract one or more sets of reads from a FASTQ (or \ [INFO] [stdout] | |_______________^ skipping everything up to and including this point [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: multiple lines skipped by escaped newline [INFO] [stdout] --> src/main.rs:35:63 [INFO] [stdout] | [INFO] [stdout] 35 | FASTA) file by specifying their read names.\n\n\ [INFO] [stdout] | _______________________________________________________________^ [INFO] [stdout] 36 | | [INFO] [stdout] 37 | | Read name files are uncompressed text files with read names \ [INFO] [stdout] | |_______________^ skipping everything up to and including this point [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: multiple lines skipped by escaped newline [INFO] [stdout] --> src/main.rs:38:37 [INFO] [stdout] | [INFO] [stdout] 38 | (without comments).\n\ [INFO] [stdout] | _____________________________________^ [INFO] [stdout] 39 | | [INFO] [stdout] 40 | | Output is gzip-compressed unless --output-uncompressed is specified, input is uncompressed.\n\ [INFO] [stdout] | |_______________^ skipping everything up to and including this point [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 3 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 1m 05s [INFO] running `Command { std: "docker" "inspect" "fa971125007c15f8875c65ae36b062ac31753674907620735be669987f00e164", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "fa971125007c15f8875c65ae36b062ac31753674907620735be669987f00e164", kill_on_drop: false }` [INFO] [stdout] fa971125007c15f8875c65ae36b062ac31753674907620735be669987f00e164 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/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=warn" "-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:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2021-09-08" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 8d0c5e55ee3286534b1d5452d8fd16668d0f4401edf95efd48fb02abe9715544 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `Command { std: "docker" "start" "-a" "8d0c5e55ee3286534b1d5452d8fd16668d0f4401edf95efd48fb02abe9715544", kill_on_drop: false }` [INFO] [stderr] Compiling getrandom v0.1.16 [INFO] [stderr] Compiling gimli v0.23.0 [INFO] [stderr] Compiling rustc-demangle v0.1.18 [INFO] [stderr] Compiling object v0.22.0 [INFO] [stderr] Compiling serde_json v1.0.61 [INFO] [stderr] Compiling difference v2.0.0 [INFO] [stderr] Compiling environment v0.1.1 [INFO] [stderr] Compiling colored v1.9.3 [INFO] [stderr] Compiling synstructure v0.12.4 [INFO] [stdout] warning: multiple lines skipped by escaped newline [INFO] [stdout] --> src/main.rs:32:18 [INFO] [stdout] | [INFO] [stdout] 32 | \n\ [INFO] [stdout] | __________________^ [INFO] [stdout] 33 | | [INFO] [stdout] 34 | | Extract one or more sets of reads from a FASTQ (or \ [INFO] [stdout] | |_______________^ skipping everything up to and including this point [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: multiple lines skipped by escaped newline [INFO] [stdout] --> src/main.rs:35:63 [INFO] [stdout] | [INFO] [stdout] 35 | FASTA) file by specifying their read names.\n\n\ [INFO] [stdout] | _______________________________________________________________^ [INFO] [stdout] 36 | | [INFO] [stdout] 37 | | Read name files are uncompressed text files with read names \ [INFO] [stdout] | |_______________^ skipping everything up to and including this point [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: multiple lines skipped by escaped newline [INFO] [stdout] --> src/main.rs:38:37 [INFO] [stdout] | [INFO] [stdout] 38 | (without comments).\n\ [INFO] [stdout] | _____________________________________^ [INFO] [stdout] 39 | | [INFO] [stdout] 40 | | Output is gzip-compressed unless --output-uncompressed is specified, input is uncompressed.\n\ [INFO] [stdout] | |_______________^ skipping everything up to and including this point [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 3 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Compiling rand_core v0.5.1 [INFO] [stderr] Compiling rand_chacha v0.2.2 [INFO] [stderr] Compiling failure_derive v0.1.8 [INFO] [stderr] Compiling rand v0.7.3 [INFO] [stderr] Compiling tempfile v3.1.0 [INFO] [stderr] Compiling addr2line v0.14.1 [INFO] [stderr] Compiling backtrace v0.3.55 [INFO] [stderr] Compiling failure v0.1.8 [INFO] [stderr] Compiling assert_cli v0.6.3 [INFO] [stderr] Compiling mfqe v0.5.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: multiple lines skipped by escaped newline [INFO] [stdout] --> src/main.rs:32:18 [INFO] [stdout] | [INFO] [stdout] 32 | \n\ [INFO] [stdout] | __________________^ [INFO] [stdout] 33 | | [INFO] [stdout] 34 | | Extract one or more sets of reads from a FASTQ (or \ [INFO] [stdout] | |_______________^ skipping everything up to and including this point [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: multiple lines skipped by escaped newline [INFO] [stdout] --> src/main.rs:35:63 [INFO] [stdout] | [INFO] [stdout] 35 | FASTA) file by specifying their read names.\n\n\ [INFO] [stdout] | _______________________________________________________________^ [INFO] [stdout] 36 | | [INFO] [stdout] 37 | | Read name files are uncompressed text files with read names \ [INFO] [stdout] | |_______________^ skipping everything up to and including this point [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: multiple lines skipped by escaped newline [INFO] [stdout] --> src/main.rs:38:37 [INFO] [stdout] | [INFO] [stdout] 38 | (without comments).\n\ [INFO] [stdout] | _____________________________________^ [INFO] [stdout] 39 | | [INFO] [stdout] 40 | | Output is gzip-compressed unless --output-uncompressed is specified, input is uncompressed.\n\ [INFO] [stdout] | |_______________^ skipping everything up to and including this point [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 3 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 27.13s [INFO] running `Command { std: "docker" "inspect" "8d0c5e55ee3286534b1d5452d8fd16668d0f4401edf95efd48fb02abe9715544", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "8d0c5e55ee3286534b1d5452d8fd16668d0f4401edf95efd48fb02abe9715544", kill_on_drop: false }` [INFO] [stdout] 8d0c5e55ee3286534b1d5452d8fd16668d0f4401edf95efd48fb02abe9715544 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-13/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=warn" "-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:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2021-09-08" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] 86ec1d74f32125ffc2f83f4b386f5b78a2266c074dbf96c383e2c3cc9ac9bab2 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `Command { std: "docker" "start" "-a" "86ec1d74f32125ffc2f83f4b386f5b78a2266c074dbf96c383e2c3cc9ac9bab2", kill_on_drop: false }` [INFO] [stderr] warning: multiple lines skipped by escaped newline [INFO] [stderr] --> src/main.rs:32:18 [INFO] [stderr] | [INFO] [stderr] 32 | \n\ [INFO] [stderr] | __________________^ [INFO] [stderr] 33 | | [INFO] [stderr] 34 | | Extract one or more sets of reads from a FASTQ (or \ [INFO] [stderr] | |_______________^ skipping everything up to and including this point [INFO] [stderr] [INFO] [stderr] warning: multiple lines skipped by escaped newline [INFO] [stderr] --> src/main.rs:35:63 [INFO] [stderr] | [INFO] [stderr] 35 | FASTA) file by specifying their read names.\n\n\ [INFO] [stderr] | _______________________________________________________________^ [INFO] [stderr] 36 | | [INFO] [stderr] 37 | | Read name files are uncompressed text files with read names \ [INFO] [stderr] | |_______________^ skipping everything up to and including this point [INFO] [stderr] [INFO] [stderr] warning: multiple lines skipped by escaped newline [INFO] [stderr] --> src/main.rs:38:37 [INFO] [stderr] | [INFO] [stderr] 38 | (without comments).\n\ [INFO] [stderr] | _____________________________________^ [INFO] [stderr] 39 | | [INFO] [stderr] 40 | | Output is gzip-compressed unless --output-uncompressed is specified, input is uncompressed.\n\ [INFO] [stderr] | |_______________^ skipping everything up to and including this point [INFO] [stderr] [INFO] [stderr] warning: `mfqe` (bin "mfqe") generated 3 warnings [INFO] [stderr] warning: `mfqe` (bin "mfqe" test) generated 3 warnings (3 duplicates) [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 0.09s [INFO] [stderr] Running unittests (/opt/rustwide/target/debug/deps/mfqe-140a3eff299958eb) [INFO] [stdout] [INFO] [stderr] Running tests/test_cmdline.rs (/opt/rustwide/target/debug/deps/test_cmdline-7d79f346aa7deaf1) [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 6 tests [INFO] [stdout] test tests::test_fastq_by_stdin ... ok [INFO] [stdout] test tests::test_fasta_by_file ... ok [INFO] [stdout] test tests::test_fasta_by_stdin ... ok [INFO] [stdout] test tests::test_define_sequence_names ... ok [INFO] [stdout] test tests::test_fastq_by_file ... ok [INFO] [stdout] test tests::test_fastq_by_file_empty_lines_in_read_names ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 6 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.97s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "86ec1d74f32125ffc2f83f4b386f5b78a2266c074dbf96c383e2c3cc9ac9bab2", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "86ec1d74f32125ffc2f83f4b386f5b78a2266c074dbf96c383e2c3cc9ac9bab2", kill_on_drop: false }` [INFO] [stdout] 86ec1d74f32125ffc2f83f4b386f5b78a2266c074dbf96c383e2c3cc9ac9bab2