[INFO] cloning repository https://github.com/oicr-gsi/barcodex-rs [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/oicr-gsi/barcodex-rs" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Foicr-gsi%2Fbarcodex-rs", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Foicr-gsi%2Fbarcodex-rs'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 192d1d201dd44715945965621224021ec55e1c43 [INFO] checking oicr-gsi/barcodex-rs against try#4f260f0f20b3133d20cfb50353c0221943af5796+rustflags=-Dunmustuse_in_always_ok for pr-148577 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Foicr-gsi%2Fbarcodex-rs" "/workspace/builds/worker-1-tc2/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-1-tc2/source'... [INFO] [stderr] done. [INFO] started tweaking git repo https://github.com/oicr-gsi/barcodex-rs [INFO] finished tweaking git repo https://github.com/oicr-gsi/barcodex-rs [INFO] tweaked toml for git repo https://github.com/oicr-gsi/barcodex-rs written to /workspace/builds/worker-1-tc2/source/Cargo.toml [INFO] validating manifest of git repo https://github.com/oicr-gsi/barcodex-rs on toolchain 4f260f0f20b3133d20cfb50353c0221943af5796 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+4f260f0f20b3133d20cfb50353c0221943af5796" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate git repo https://github.com/oicr-gsi/barcodex-rs 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" "+4f260f0f20b3133d20cfb50353c0221943af5796" "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" "+4f260f0f20b3133d20cfb50353c0221943af5796" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] a3100033a37ba61aeb729fddc78c66585a74a0881d2ede80238ddb923fca104a [INFO] running `Command { std: "docker" "start" "-a" "a3100033a37ba61aeb729fddc78c66585a74a0881d2ede80238ddb923fca104a", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "a3100033a37ba61aeb729fddc78c66585a74a0881d2ede80238ddb923fca104a", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "a3100033a37ba61aeb729fddc78c66585a74a0881d2ede80238ddb923fca104a", kill_on_drop: false }` [INFO] [stdout] a3100033a37ba61aeb729fddc78c66585a74a0881d2ede80238ddb923fca104a [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 -Dunmustuse_in_always_ok" "-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" "+4f260f0f20b3133d20cfb50353c0221943af5796" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] e765b4963fba104936fecbcc16be4ea86b8891567a9c00550eef9b2c2a8db3f6 [INFO] running `Command { std: "docker" "start" "-a" "e765b4963fba104936fecbcc16be4ea86b8891567a9c00550eef9b2c2a8db3f6", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro2 v1.0.19 [INFO] [stderr] Compiling syn v1.0.36 [INFO] [stderr] Compiling serde_derive v1.0.114 [INFO] [stderr] Compiling serde v1.0.114 [INFO] [stderr] Compiling libc v0.2.73 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling num-traits v0.2.12 [INFO] [stderr] Compiling proc-macro-error-attr v0.4.12 [INFO] [stderr] Compiling num-integer v0.1.43 [INFO] [stderr] Compiling hashbrown v0.8.1 [INFO] [stderr] Compiling proc-macro-error v0.4.12 [INFO] [stderr] Compiling num-complex v0.2.4 [INFO] [stderr] Checking aho-corasick v0.7.13 [INFO] [stderr] Checking regex-automata v0.1.9 [INFO] [stderr] Compiling indexmap v1.5.0 [INFO] [stderr] Compiling ndarray v0.13.1 [INFO] [stderr] Checking csv-core v0.1.10 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Checking bit-vec v0.6.2 [INFO] [stderr] Checking adler v0.2.3 [INFO] [stderr] Compiling bio v0.31.0 [INFO] [stderr] Checking ordermap v0.3.5 [INFO] [stderr] Compiling serde_json v1.0.57 [INFO] [stderr] Checking fixedbitset v0.1.9 [INFO] [stderr] Checking textwrap v0.11.0 [INFO] [stderr] Checking fxhash v0.2.1 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking bytecount v0.6.0 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Checking os_str_bytes v2.3.1 [INFO] [stderr] Checking termcolor v1.1.0 [INFO] [stderr] Checking getrandom v0.1.14 [INFO] [stderr] Checking miniz_oxide v0.4.0 [INFO] [stderr] Checking atty v0.2.14 [INFO] [stderr] Checking rand_core v0.5.1 [INFO] [stderr] Checking bit-set v0.5.2 [INFO] [stderr] Checking regex v1.3.9 [INFO] [stderr] Checking petgraph v0.4.13 [INFO] [stderr] Checking rand_chacha v0.2.2 [INFO] [stderr] Checking flate2 v1.0.16 [INFO] [stderr] Compiling quote v1.0.7 [INFO] [stderr] Checking rand v0.7.3 [INFO] [stderr] Checking ordered-float v1.1.0 [INFO] [stderr] Checking itertools-num v0.1.3 [INFO] [stderr] Checking approx v0.3.2 [INFO] [stderr] Checking statrs v0.12.0 [INFO] [stderr] Compiling syn-mid v0.5.0 [INFO] [stderr] Compiling snafu-derive v0.6.8 [INFO] [stderr] Compiling derive-new v0.5.8 [INFO] [stderr] Compiling strum_macros v0.18.0 [INFO] [stderr] Compiling getset v0.0.9 [INFO] [stderr] Compiling clap_derive v3.0.0-beta.1 [INFO] [stderr] Checking snafu v0.6.8 [INFO] [stderr] Checking bstr v0.2.13 [INFO] [stderr] Checking vec_map v0.8.2 [INFO] [stderr] Checking multimap v0.6.0 [INFO] [stderr] Checking bio-types v0.7.0 [INFO] [stderr] Checking bv v0.11.1 [INFO] [stderr] Checking clap v3.0.0-beta.1 [INFO] [stderr] Checking csv v1.1.3 [INFO] [stderr] Checking barcodex-rs v0.1.2 (/opt/rustwide/workdir) [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:458:5 [INFO] [stdout] | [INFO] [stdout] 458 | / #[clap(long, about = "Path to file with valid UMIs (1st column)")] [INFO] [stdout] 459 | | umilist: String, [INFO] [stdout] | |___________________^ [INFO] [stdout] | [INFO] [stdout] = note: requested on the command line with `-D unmustuse-in-always-ok` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:460:5 [INFO] [stdout] | [INFO] [stdout] 460 | / #[clap(long, about = "The prefix for output data files.")] [INFO] [stdout] 461 | | prefix: String, [INFO] [stdout] | |__________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:462:5 [INFO] [stdout] | [INFO] [stdout] 462 | / #[clap( [INFO] [stdout] 463 | | long, [INFO] [stdout] 464 | | default_value = "_", [INFO] [stdout] 465 | | about = "String separating the UMI sequence in the read name" [INFO] [stdout] 466 | | )] [INFO] [stdout] 467 | | separator: String, [INFO] [stdout] | |_____________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:478:9 [INFO] [stdout] | [INFO] [stdout] 478 | / #[clap(long, required = true, about = "Path to input FASTQ 1")] [INFO] [stdout] 479 | | r1_in: Vec, [INFO] [stdout] | |__________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:480:9 [INFO] [stdout] | [INFO] [stdout] 480 | / #[clap(long, about = "Path to input FASTQ 2")] [INFO] [stdout] 481 | | r2_in: Vec, [INFO] [stdout] | |__________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:482:9 [INFO] [stdout] | [INFO] [stdout] 482 | / #[clap(long, about = "Barcode string or regex for extracting UMIs in read 1")] [INFO] [stdout] 483 | | pattern1: String, [INFO] [stdout] | |________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:484:9 [INFO] [stdout] | [INFO] [stdout] 484 | / #[clap(long, about = "Barcode string or regex for extracting UMIs in read 2")] [INFO] [stdout] 485 | | pattern2: Option, [INFO] [stdout] | |________________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:497:9 [INFO] [stdout] | [INFO] [stdout] 497 | / #[clap( [INFO] [stdout] 498 | | long, [INFO] [stdout] 499 | | required = true, [INFO] [stdout] 500 | | about = "Path to input FASTQ containing the UMI" [INFO] [stdout] 501 | | )] [INFO] [stdout] 502 | | ru_in: Vec, [INFO] [stdout] | |__________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:503:9 [INFO] [stdout] | [INFO] [stdout] 503 | / #[clap(long, required = true, about = "Path to input FASTQ 1")] [INFO] [stdout] 504 | | r1_in: Vec, [INFO] [stdout] | |__________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:505:9 [INFO] [stdout] | [INFO] [stdout] 505 | / #[clap(long, about = "Path to input FASTQ 2")] [INFO] [stdout] 506 | | r2_in: Vec, [INFO] [stdout] | |__________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] error: could not compile `barcodex-rs` (bin "barcodex-rs") due to 10 previous errors [INFO] [stderr] warning: build failed, waiting for other jobs to finish... [INFO] [stderr] error: could not compile `barcodex-rs` (bin "barcodex-rs" test) due to 10 previous errors [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:458:5 [INFO] [stdout] | [INFO] [stdout] 458 | / #[clap(long, about = "Path to file with valid UMIs (1st column)")] [INFO] [stdout] 459 | | umilist: String, [INFO] [stdout] | |___________________^ [INFO] [stdout] | [INFO] [stdout] = note: requested on the command line with `-D unmustuse-in-always-ok` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:460:5 [INFO] [stdout] | [INFO] [stdout] 460 | / #[clap(long, about = "The prefix for output data files.")] [INFO] [stdout] 461 | | prefix: String, [INFO] [stdout] | |__________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:462:5 [INFO] [stdout] | [INFO] [stdout] 462 | / #[clap( [INFO] [stdout] 463 | | long, [INFO] [stdout] 464 | | default_value = "_", [INFO] [stdout] 465 | | about = "String separating the UMI sequence in the read name" [INFO] [stdout] 466 | | )] [INFO] [stdout] 467 | | separator: String, [INFO] [stdout] | |_____________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:478:9 [INFO] [stdout] | [INFO] [stdout] 478 | / #[clap(long, required = true, about = "Path to input FASTQ 1")] [INFO] [stdout] 479 | | r1_in: Vec, [INFO] [stdout] | |__________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:480:9 [INFO] [stdout] | [INFO] [stdout] 480 | / #[clap(long, about = "Path to input FASTQ 2")] [INFO] [stdout] 481 | | r2_in: Vec, [INFO] [stdout] | |__________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:482:9 [INFO] [stdout] | [INFO] [stdout] 482 | / #[clap(long, about = "Barcode string or regex for extracting UMIs in read 1")] [INFO] [stdout] 483 | | pattern1: String, [INFO] [stdout] | |________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:484:9 [INFO] [stdout] | [INFO] [stdout] 484 | / #[clap(long, about = "Barcode string or regex for extracting UMIs in read 2")] [INFO] [stdout] 485 | | pattern2: Option, [INFO] [stdout] | |________________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:497:9 [INFO] [stdout] | [INFO] [stdout] 497 | / #[clap( [INFO] [stdout] 498 | | long, [INFO] [stdout] 499 | | required = true, [INFO] [stdout] 500 | | about = "Path to input FASTQ containing the UMI" [INFO] [stdout] 501 | | )] [INFO] [stdout] 502 | | ru_in: Vec, [INFO] [stdout] | |__________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:503:9 [INFO] [stdout] | [INFO] [stdout] 503 | / #[clap(long, required = true, about = "Path to input FASTQ 1")] [INFO] [stdout] 504 | | r1_in: Vec, [INFO] [stdout] | |__________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: this type will no longer be must used: Result [INFO] [stdout] --> src/main.rs:505:9 [INFO] [stdout] | [INFO] [stdout] 505 | / #[clap(long, about = "Path to input FASTQ 2")] [INFO] [stdout] 506 | | r2_in: Vec, [INFO] [stdout] | |__________________________^ [INFO] [stdout] [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "e765b4963fba104936fecbcc16be4ea86b8891567a9c00550eef9b2c2a8db3f6", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "e765b4963fba104936fecbcc16be4ea86b8891567a9c00550eef9b2c2a8db3f6", kill_on_drop: false }` [INFO] [stdout] e765b4963fba104936fecbcc16be4ea86b8891567a9c00550eef9b2c2a8db3f6