[INFO] cloning repository https://github.com/legaultmarc/genepa-rs [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/legaultmarc/genepa-rs" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Flegaultmarc%2Fgenepa-rs", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Flegaultmarc%2Fgenepa-rs'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 4ee2025b9265ff8ae4ea21980678cb8a011f421e [INFO] checking legaultmarc/genepa-rs against master#5a8a44196b3cf099f8c9b0156bd902eaec0b4e5f for pr-87248 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Flegaultmarc%2Fgenepa-rs" "/workspace/builds/worker-12/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-12/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/legaultmarc/genepa-rs on toolchain 5a8a44196b3cf099f8c9b0156bd902eaec0b4e5f [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+5a8a44196b3cf099f8c9b0156bd902eaec0b4e5f" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/legaultmarc/genepa-rs [INFO] finished tweaking git repo https://github.com/legaultmarc/genepa-rs [INFO] tweaked toml for git repo https://github.com/legaultmarc/genepa-rs written to /workspace/builds/worker-12/source/Cargo.toml [INFO] crate git repo https://github.com/legaultmarc/genepa-rs already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+5a8a44196b3cf099f8c9b0156bd902eaec0b4e5f" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-12/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-12/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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+5a8a44196b3cf099f8c9b0156bd902eaec0b4e5f" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 7de46ed305658022c4a3e0c196991580839bf5bb4a687b6ae2b9ab13f40b44c5 [INFO] running `Command { std: "docker" "start" "-a" "7de46ed305658022c4a3e0c196991580839bf5bb4a687b6ae2b9ab13f40b44c5", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "7de46ed305658022c4a3e0c196991580839bf5bb4a687b6ae2b9ab13f40b44c5", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "7de46ed305658022c4a3e0c196991580839bf5bb4a687b6ae2b9ab13f40b44c5", kill_on_drop: false }` [INFO] [stdout] 7de46ed305658022c4a3e0c196991580839bf5bb4a687b6ae2b9ab13f40b44c5 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-12/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-12/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" "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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+5a8a44196b3cf099f8c9b0156bd902eaec0b4e5f" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 1db59a704b804534ce8dea7489891239ccd463d8fbc1566153a3f833ab9eb5c5 [INFO] running `Command { std: "docker" "start" "-a" "1db59a704b804534ce8dea7489891239ccd463d8fbc1566153a3f833ab9eb5c5", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Compiling num-traits v0.2.6 [INFO] [stderr] Compiling num-complex v0.2.1 [INFO] [stderr] Compiling ndarray v0.12.1 [INFO] [stderr] Checking itertools v0.7.11 [INFO] [stderr] Checking genepa_rs v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused import: `std::f32::NAN` [INFO] [stdout] --> src/c_api.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use std::f32::NAN; [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unnecessary parentheses around block return value [INFO] [stdout] --> src/plink.rs:370:9 [INFO] [stdout] | [INFO] [stdout] 370 | / ( [INFO] [stdout] 371 | | first_3_bytes[0] == 0x6c && [INFO] [stdout] 372 | | first_3_bytes[1] == 0x1b && [INFO] [stdout] 373 | | first_3_bytes[2] == 0x01 [INFO] [stdout] 374 | | ) [INFO] [stdout] | |_________^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_parens)]` on by default [INFO] [stdout] help: remove these parentheses [INFO] [stdout] | [INFO] [stdout] 370 | first_3_bytes[0] == 0x6c && [INFO] [stdout] 371 | first_3_bytes[1] == 0x1b && [INFO] [stdout] 372 | first_3_bytes[2] == 0x01 [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: couldn't read src/../test_data/common_extracted_1kg.missing.bed: No such file or directory (os error 2) [INFO] [stdout] --> src/plink.rs:386:19 [INFO] [stdout] | [INFO] [stdout] 386 | let bed = include_bytes!( [INFO] [stdout] | ___________________^ [INFO] [stdout] 387 | | "../test_data/common_extracted_1kg.missing.bed" [INFO] [stdout] 388 | | ); [INFO] [stdout] | |_________^ [INFO] [stdout] | [INFO] [stdout] = note: this error originates in the macro `include_bytes` (in Nightly builds, run with -Z macro-backtrace for more info) [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::f32::NAN` [INFO] [stdout] --> src/c_api.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use std::f32::NAN; [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unnecessary parentheses around block return value [INFO] [stdout] --> src/plink.rs:370:9 [INFO] [stdout] | [INFO] [stdout] 370 | / ( [INFO] [stdout] 371 | | first_3_bytes[0] == 0x6c && [INFO] [stdout] 372 | | first_3_bytes[1] == 0x1b && [INFO] [stdout] 373 | | first_3_bytes[2] == 0x01 [INFO] [stdout] 374 | | ) [INFO] [stdout] | |_________^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_parens)]` on by default [INFO] [stdout] help: remove these parentheses [INFO] [stdout] | [INFO] [stdout] 370 | first_3_bytes[0] == 0x6c && [INFO] [stdout] 371 | first_3_bytes[1] == 0x1b && [INFO] [stdout] 372 | first_3_bytes[2] == 0x01 [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `geno_arr_others` [INFO] [stdout] --> src/utils.rs:20:9 [INFO] [stdout] | [INFO] [stdout] 20 | let geno_arr_others = ArrayViewMut::from_shape( [INFO] [stdout] | ^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_geno_arr_others` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `r2` [INFO] [stdout] --> src/utils.rs:5:74 [INFO] [stdout] | [INFO] [stdout] 5 | pub fn compute_ld(mut g: Genotypes, mut other_genotypes: Vec, r2: bool) [INFO] [stdout] | ^^ help: if this is intentional, prefix it with an underscore: `_r2` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: aborting due to previous error; 2 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] error: could not compile `genepa_rs` due to 2 previous errors; 2 warnings emitted [INFO] [stderr] warning: build failed, waiting for other jobs to finish... [INFO] [stdout] warning: 4 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] error: build failed [INFO] running `Command { std: "docker" "inspect" "1db59a704b804534ce8dea7489891239ccd463d8fbc1566153a3f833ab9eb5c5", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "1db59a704b804534ce8dea7489891239ccd463d8fbc1566153a3f833ab9eb5c5", kill_on_drop: false }` [INFO] [stdout] 1db59a704b804534ce8dea7489891239ccd463d8fbc1566153a3f833ab9eb5c5