[INFO] cloning repository https://github.com/p-sud/gembs-to-bismark-bed-converter [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/p-sud/gembs-to-bismark-bed-converter" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fp-sud%2Fgembs-to-bismark-bed-converter", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fp-sud%2Fgembs-to-bismark-bed-converter'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 253b463673014677fc8ef6392643d036966fab89 [INFO] testing p-sud/gembs-to-bismark-bed-converter against 1.59.0 for beta-1.60-1 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fp-sud%2Fgembs-to-bismark-bed-converter" "/workspace/builds/worker-25/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-25/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/p-sud/gembs-to-bismark-bed-converter on toolchain 1.59.0 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.59.0" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/p-sud/gembs-to-bismark-bed-converter [INFO] finished tweaking git repo https://github.com/p-sud/gembs-to-bismark-bed-converter [INFO] tweaked toml for git repo https://github.com/p-sud/gembs-to-bismark-bed-converter written to /workspace/builds/worker-25/source/Cargo.toml [INFO] crate git repo https://github.com/p-sud/gembs-to-bismark-bed-converter already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.59.0" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-25/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-25/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@sha256:0cd99ca24d8e8c98e67c542213511d985b8778b5bdcbb160e038429496686047" "/opt/rustwide/cargo-home/bin/cargo" "+1.59.0" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 807afe0c71b0fe378a54b34fdeba233bbf9ed5126a356e97dde5a48f09d7ae92 [INFO] running `Command { std: "docker" "start" "-a" "807afe0c71b0fe378a54b34fdeba233bbf9ed5126a356e97dde5a48f09d7ae92", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "807afe0c71b0fe378a54b34fdeba233bbf9ed5126a356e97dde5a48f09d7ae92", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "807afe0c71b0fe378a54b34fdeba233bbf9ed5126a356e97dde5a48f09d7ae92", kill_on_drop: false }` [INFO] [stdout] 807afe0c71b0fe378a54b34fdeba233bbf9ed5126a356e97dde5a48f09d7ae92 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-25/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-25/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@sha256:0cd99ca24d8e8c98e67c542213511d985b8778b5bdcbb160e038429496686047" "/opt/rustwide/cargo-home/bin/cargo" "+1.59.0" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] dbc9d47cca186d10c6696fb9933fecceb03e5eecd5097a8e1a63eab5d4e6f491 [INFO] running `Command { std: "docker" "start" "-a" "dbc9d47cca186d10c6696fb9933fecceb03e5eecd5097a8e1a63eab5d4e6f491", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro2 v1.0.7 [INFO] [stderr] Compiling syn v1.0.13 [INFO] [stderr] Compiling libc v0.2.66 [INFO] [stderr] Compiling byteorder v1.3.2 [INFO] [stderr] Compiling memchr v2.2.1 [INFO] [stderr] Compiling serde v1.0.104 [INFO] [stderr] Compiling ryu v1.0.2 [INFO] [stderr] Compiling unicode-segmentation v1.6.0 [INFO] [stderr] Compiling heck v0.3.1 [INFO] [stderr] Compiling regex-automata v0.1.8 [INFO] [stderr] Compiling quote v1.0.2 [INFO] [stderr] Compiling atty v0.2.14 [INFO] [stderr] Compiling clap v2.33.0 [INFO] [stderr] Compiling csv-core v0.1.6 [INFO] [stderr] Compiling syn-mid v0.4.0 [INFO] [stderr] Compiling rustversion v1.0.1 [INFO] [stderr] Compiling serde_derive v1.0.104 [INFO] [stderr] Compiling proc-macro-error v0.4.4 [INFO] [stderr] Compiling proc-macro-error-attr v0.4.3 [INFO] [stderr] Compiling structopt-derive v0.4.0 [INFO] [stderr] Compiling structopt v0.3.7 [INFO] [stderr] Compiling bstr v0.2.8 [INFO] [stderr] Compiling csv v1.1.2 [INFO] [stderr] Compiling gembs-to-bismark-bed-converter v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: field is never read: `reference_call` [INFO] [stdout] --> src/main.rs:24:5 [INFO] [stdout] | [INFO] [stdout] 24 | reference_call: String, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field is never read: `genotype_call` [INFO] [stdout] --> src/main.rs:26:5 [INFO] [stdout] | [INFO] [stdout] 26 | genotype_call: String, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field is never read: `flags` [INFO] [stdout] --> src/main.rs:28:5 [INFO] [stdout] | [INFO] [stdout] 28 | flags: String, [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field is never read: `methylation_estimate` [INFO] [stdout] --> src/main.rs:30:5 [INFO] [stdout] | [INFO] [stdout] 30 | methylation_estimate: String, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field is never read: `total_bases_supporting_call` [INFO] [stdout] --> src/main.rs:35:5 [INFO] [stdout] | [INFO] [stdout] 35 | total_bases_supporting_call: u16, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field is never read: `total_bases` [INFO] [stdout] --> src/main.rs:39:5 [INFO] [stdout] | [INFO] [stdout] 39 | total_bases: u16, [INFO] [stdout] | ^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 6 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 21.60s [INFO] running `Command { std: "docker" "inspect" "dbc9d47cca186d10c6696fb9933fecceb03e5eecd5097a8e1a63eab5d4e6f491", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "dbc9d47cca186d10c6696fb9933fecceb03e5eecd5097a8e1a63eab5d4e6f491", kill_on_drop: false }` [INFO] [stdout] dbc9d47cca186d10c6696fb9933fecceb03e5eecd5097a8e1a63eab5d4e6f491 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-25/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-25/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@sha256:0cd99ca24d8e8c98e67c542213511d985b8778b5bdcbb160e038429496686047" "/opt/rustwide/cargo-home/bin/cargo" "+1.59.0" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 84fad8a814658698c0f3fea329a632f0c33a86da069e1b07e07ff2b5522fc161 [INFO] running `Command { std: "docker" "start" "-a" "84fad8a814658698c0f3fea329a632f0c33a86da069e1b07e07ff2b5522fc161", kill_on_drop: false }` [INFO] [stderr] Compiling gembs-to-bismark-bed-converter v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: field is never read: `reference_call` [INFO] [stdout] --> src/main.rs:24:5 [INFO] [stdout] | [INFO] [stdout] 24 | reference_call: String, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field is never read: `genotype_call` [INFO] [stdout] --> src/main.rs:26:5 [INFO] [stdout] | [INFO] [stdout] 26 | genotype_call: String, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field is never read: `flags` [INFO] [stdout] --> src/main.rs:28:5 [INFO] [stdout] | [INFO] [stdout] 28 | flags: String, [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field is never read: `methylation_estimate` [INFO] [stdout] --> src/main.rs:30:5 [INFO] [stdout] | [INFO] [stdout] 30 | methylation_estimate: String, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field is never read: `total_bases_supporting_call` [INFO] [stdout] --> src/main.rs:35:5 [INFO] [stdout] | [INFO] [stdout] 35 | total_bases_supporting_call: u16, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field is never read: `total_bases` [INFO] [stdout] --> src/main.rs:39:5 [INFO] [stdout] | [INFO] [stdout] 39 | total_bases: u16, [INFO] [stdout] | ^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 6 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 0.60s [INFO] running `Command { std: "docker" "inspect" "84fad8a814658698c0f3fea329a632f0c33a86da069e1b07e07ff2b5522fc161", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "84fad8a814658698c0f3fea329a632f0c33a86da069e1b07e07ff2b5522fc161", kill_on_drop: false }` [INFO] [stdout] 84fad8a814658698c0f3fea329a632f0c33a86da069e1b07e07ff2b5522fc161 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-25/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-25/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@sha256:0cd99ca24d8e8c98e67c542213511d985b8778b5bdcbb160e038429496686047" "/opt/rustwide/cargo-home/bin/cargo" "+1.59.0" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] 4a62a033a3a8cc7f99ce5ce90c1249c50721c86cdceef8f42471f121545fdaa5 [INFO] running `Command { std: "docker" "start" "-a" "4a62a033a3a8cc7f99ce5ce90c1249c50721c86cdceef8f42471f121545fdaa5", kill_on_drop: false }` [INFO] [stderr] warning: field is never read: `reference_call` [INFO] [stderr] --> src/main.rs:24:5 [INFO] [stderr] | [INFO] [stderr] 24 | reference_call: String, [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(dead_code)]` on by default [INFO] [stderr] [INFO] [stderr] warning: field is never read: `genotype_call` [INFO] [stderr] --> src/main.rs:26:5 [INFO] [stderr] | [INFO] [stderr] 26 | genotype_call: String, [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: field is never read: `flags` [INFO] [stderr] --> src/main.rs:28:5 [INFO] [stderr] | [INFO] [stderr] 28 | flags: String, [INFO] [stderr] | ^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: field is never read: `methylation_estimate` [INFO] [stderr] --> src/main.rs:30:5 [INFO] [stderr] | [INFO] [stderr] 30 | methylation_estimate: String, [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: field is never read: `total_bases_supporting_call` [INFO] [stderr] --> src/main.rs:35:5 [INFO] [stderr] | [INFO] [stderr] 35 | total_bases_supporting_call: u16, [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: field is never read: `total_bases` [INFO] [stderr] --> src/main.rs:39:5 [INFO] [stderr] | [INFO] [stderr] 39 | total_bases: u16, [INFO] [stderr] | ^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: `gembs-to-bismark-bed-converter` (bin "gembs-to-bismark-bed-converter" test) generated 6 warnings [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 0.02s [INFO] [stderr] Running unittests (/opt/rustwide/target/debug/deps/gembs_to_bismark_bed_converter-bbf1bb548fee3540) [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" "4a62a033a3a8cc7f99ce5ce90c1249c50721c86cdceef8f42471f121545fdaa5", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "4a62a033a3a8cc7f99ce5ce90c1249c50721c86cdceef8f42471f121545fdaa5", kill_on_drop: false }` [INFO] [stdout] 4a62a033a3a8cc7f99ce5ce90c1249c50721c86cdceef8f42471f121545fdaa5