[INFO] cloning repository https://github.com/bihealth/var-agg [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/bihealth/var-agg" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbihealth%2Fvar-agg", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbihealth%2Fvar-agg'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 471f9e96eaae18d5d3b9ded56b29fc186f420178 [INFO] checking bihealth/var-agg against master#33fdb797f59421c7bbecaa4588ed5d7a31a9494a for pr-87190-3 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbihealth%2Fvar-agg" "/workspace/builds/worker-17/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-17/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/bihealth/var-agg on toolchain 33fdb797f59421c7bbecaa4588ed5d7a31a9494a [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+33fdb797f59421c7bbecaa4588ed5d7a31a9494a" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/bihealth/var-agg [INFO] finished tweaking git repo https://github.com/bihealth/var-agg [INFO] tweaked toml for git repo https://github.com/bihealth/var-agg written to /workspace/builds/worker-17/source/Cargo.toml [INFO] crate git repo https://github.com/bihealth/var-agg already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+33fdb797f59421c7bbecaa4588ed5d7a31a9494a" "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] [stderr] Downloading crates ... [INFO] [stderr] Downloaded itertools-num v0.1.2 [INFO] [stderr] Downloaded bytecount v0.3.2 [INFO] [stderr] Downloaded statrs v0.9.0 [INFO] [stderr] Downloaded csv v1.0.1 [INFO] [stderr] Downloaded clang-sys v0.22.0 [INFO] [stderr] Downloaded bv v0.7.4 [INFO] [stderr] Downloaded ndarray v0.9.1 [INFO] [stderr] Downloaded slog v2.3.3 [INFO] [stderr] Downloaded fs-utils v1.1.0 [INFO] [stderr] Downloaded ieee754 v0.2.2 [INFO] [stderr] Downloaded bindgen v0.36.1 [INFO] [stderr] Downloaded serde_derive v1.0.76 [INFO] [stderr] Downloaded bio-types v0.2.0 [INFO] [stderr] Downloaded bio v0.22.0 [INFO] [stderr] Downloaded rust-htslib v0.21.0 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-17/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-17/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" "+33fdb797f59421c7bbecaa4588ed5d7a31a9494a" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 945a14a0a582c6e839542d48679abf37fdd6baf990a14327a6d3d9fedca53f0f [INFO] running `Command { std: "docker" "start" "-a" "945a14a0a582c6e839542d48679abf37fdd6baf990a14327a6d3d9fedca53f0f", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "945a14a0a582c6e839542d48679abf37fdd6baf990a14327a6d3d9fedca53f0f", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "945a14a0a582c6e839542d48679abf37fdd6baf990a14327a6d3d9fedca53f0f", kill_on_drop: false }` [INFO] [stdout] 945a14a0a582c6e839542d48679abf37fdd6baf990a14327a6d3d9fedca53f0f [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-17/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-17/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" "+33fdb797f59421c7bbecaa4588ed5d7a31a9494a" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 1da0da60de8949f9133737b4c3ccecd7a96734173a45d3197727a970ccfdb1b2 [INFO] running `Command { std: "docker" "start" "-a" "1da0da60de8949f9133737b4c3ccecd7a96734173a45d3197727a970ccfdb1b2", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Checking libc v0.2.43 [INFO] [stderr] Compiling proc-macro2 v0.4.17 [INFO] [stderr] Compiling version_check v0.1.4 [INFO] [stderr] Compiling serde v1.0.76 [INFO] [stderr] Compiling cc v1.0.23 [INFO] [stderr] Compiling num-traits v0.2.5 [INFO] [stderr] Compiling glob v0.2.11 [INFO] [stderr] Compiling regex v1.0.4 [INFO] [stderr] Compiling regex v0.2.11 [INFO] [stderr] Compiling quick-error v1.2.2 [INFO] [stderr] Compiling utf8-ranges v1.0.1 [INFO] [stderr] Compiling unicode-width v0.1.5 [INFO] [stderr] Compiling cfg-if v0.1.5 [INFO] [stderr] Checking ucd-util v0.1.1 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling num-integer v0.1.39 [INFO] [stderr] Compiling bitflags v1.0.4 [INFO] [stderr] Compiling bindgen v0.36.1 [INFO] [stderr] Compiling yaml-rust v0.3.5 [INFO] [stderr] Compiling strsim v0.7.0 [INFO] [stderr] Compiling termcolor v1.0.3 [INFO] [stderr] Compiling matrixmultiply v0.1.14 [INFO] [stderr] Checking byteorder v1.2.6 [INFO] [stderr] Checking matches v0.1.8 [INFO] [stderr] Compiling peeking_take_while v0.1.2 [INFO] [stderr] Checking either v1.5.0 [INFO] [stderr] Checking rawpointer v0.1.0 [INFO] [stderr] Compiling ndarray v0.9.1 [INFO] [stderr] Checking unicode-normalization v0.1.7 [INFO] [stderr] Compiling bv v0.7.4 [INFO] [stderr] Checking void v1.0.2 [INFO] [stderr] Checking lazy_static v0.2.11 [INFO] [stderr] Checking rustc-demangle v0.1.9 [INFO] [stderr] Checking slog v2.3.3 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking bit-vec v0.4.4 [INFO] [stderr] Checking percent-encoding v1.0.1 [INFO] [stderr] Checking bitflags v0.9.1 [INFO] [stderr] Checking approx v0.1.1 [INFO] [stderr] Checking take_mut v0.2.2 [INFO] [stderr] Checking bytecount v0.3.2 [INFO] [stderr] Checking linear-map v1.2.0 [INFO] [stderr] Checking ieee754 v0.2.2 [INFO] [stderr] Checking shlex v0.1.1 [INFO] [stderr] Compiling proc-macro2 v0.3.5 [INFO] [stderr] Compiling regex-syntax v0.6.2 [INFO] [stderr] Compiling regex-syntax v0.5.6 [INFO] [stderr] Checking textwrap v0.10.0 [INFO] [stderr] Compiling log v0.4.5 [INFO] [stderr] Compiling humantime v1.1.1 [INFO] [stderr] Compiling fs-utils v1.1.0 [INFO] [stderr] Checking unicode-bidi v0.3.4 [INFO] [stderr] Checking unreachable v0.1.1 [INFO] [stderr] Checking itertools v0.6.5 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Compiling lazy_static v1.1.0 [INFO] [stderr] Checking bit-set v0.4.0 [INFO] [stderr] Compiling memchr v2.0.2 [INFO] [stderr] Compiling atty v0.2.11 [INFO] [stderr] Compiling memchr v1.0.2 [INFO] [stderr] Compiling which v1.0.5 [INFO] [stderr] Compiling quote v0.5.2 [INFO] [stderr] Checking rand v0.4.3 [INFO] [stderr] Checking time v0.1.40 [INFO] [stderr] Checking isatty v0.1.8 [INFO] [stderr] Checking term v0.5.1 [INFO] [stderr] Checking fxhash v0.2.1 [INFO] [stderr] Compiling clang-sys v0.22.0 [INFO] [stderr] Compiling libloading v0.5.0 [INFO] [stderr] Compiling backtrace-sys v0.1.24 [INFO] [stderr] Compiling nom v3.2.1 [INFO] [stderr] Compiling aho-corasick v0.6.8 [INFO] [stderr] Checking idna v0.1.5 [INFO] [stderr] Checking num-traits v0.1.43 [INFO] [stderr] Checking num-complex v0.1.43 [INFO] [stderr] Checking itertools-num v0.1.2 [INFO] [stderr] Checking ordered-float v0.5.0 [INFO] [stderr] Compiling thread_local v0.3.6 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Checking csv-core v0.1.4 [INFO] [stderr] Checking url v1.7.1 [INFO] [stderr] Checking rand v0.3.22 [INFO] [stderr] Compiling quote v0.6.8 [INFO] [stderr] Checking slog-async v2.3.0 [INFO] [stderr] Compiling syn v0.14.9 [INFO] [stderr] Checking chrono v0.4.6 [INFO] [stderr] Compiling cexpr v0.2.3 [INFO] [stderr] Checking statrs v0.9.0 [INFO] [stderr] Checking backtrace v0.3.9 [INFO] [stderr] Checking error-chain v0.12.0 [INFO] [stderr] Checking slog-term v2.4.0 [INFO] [stderr] Compiling env_logger v0.5.13 [INFO] [stderr] Compiling serde_derive v1.0.76 [INFO] [stderr] Compiling vec_map v0.8.1 [INFO] [stderr] Compiling clap v2.32.0 [INFO] [stderr] Checking bio-types v0.2.0 [INFO] [stderr] Checking multimap v0.4.0 [INFO] [stderr] Checking csv v1.0.1 [INFO] [stderr] Checking bio v0.22.0 [INFO] [stderr] Compiling rust-htslib v0.21.0 [INFO] [stderr] Checking var-agg v0.1.1 (/opt/rustwide/workdir) [INFO] [stdout] warning: the item `rust_htslib` is imported redundantly [INFO] [stdout] --> src/bcf_utils.rs:14:13 [INFO] [stdout] | [INFO] [stdout] 4 | use rust_htslib; [INFO] [stdout] | ----------- the item `rust_htslib` is already imported here [INFO] [stdout] ... [INFO] [stdout] 14 | use rust_htslib; [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: the item `ffi` is imported redundantly [INFO] [stdout] --> src/bcf_utils.rs:15:13 [INFO] [stdout] | [INFO] [stdout] 5 | use std::ffi; [INFO] [stdout] | -------- the item `ffi` is already imported here [INFO] [stdout] ... [INFO] [stdout] 15 | use std::ffi; [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: the item `rust_htslib` is imported redundantly [INFO] [stdout] --> src/bcf_utils.rs:14:13 [INFO] [stdout] | [INFO] [stdout] 4 | use rust_htslib; [INFO] [stdout] | ----------- the item `rust_htslib` is already imported here [INFO] [stdout] ... [INFO] [stdout] 14 | use rust_htslib; [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: the item `ffi` is imported redundantly [INFO] [stdout] --> src/bcf_utils.rs:15:13 [INFO] [stdout] | [INFO] [stdout] 5 | use std::ffi; [INFO] [stdout] | -------- the item `ffi` is already imported here [INFO] [stdout] ... [INFO] [stdout] 15 | use std::ffi; [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: getting the inner pointer of a temporary `CString` [INFO] [stdout] --> src/bcf_utils.rs:18:61 [INFO] [stdout] | [INFO] [stdout] 18 | ffi::CString::new(path.as_bytes()).unwrap().as_ptr(), [INFO] [stdout] | ------------------------------------------- ^^^^^^ this pointer will be invalid [INFO] [stdout] | | [INFO] [stdout] | this `CString` is deallocated at the end of the statement, bind it to a variable to extend its lifetime [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(temporary_cstring_as_ptr)]` on by default [INFO] [stdout] = note: pointers do not have a lifetime; when calling `as_ptr` the `CString` will be deallocated at the end of the statement because nothing is referencing it as far as the type system is concerned [INFO] [stdout] = help: for more information, see https://doc.rust-lang.org/reference/destructors.html [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: getting the inner pointer of a temporary `CString` [INFO] [stdout] --> src/bcf_utils.rs:30:61 [INFO] [stdout] | [INFO] [stdout] 30 | ffi::CString::new(path.as_bytes()).unwrap().as_ptr(), [INFO] [stdout] | ------------------------------------------- ^^^^^^ this pointer will be invalid [INFO] [stdout] | | [INFO] [stdout] | this `CString` is deallocated at the end of the statement, bind it to a variable to extend its lifetime [INFO] [stdout] | [INFO] [stdout] = note: pointers do not have a lifetime; when calling `as_ptr` the `CString` will be deallocated at the end of the statement because nothing is referencing it as far as the type system is concerned [INFO] [stdout] = help: for more information, see https://doc.rust-lang.org/reference/destructors.html [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: getting the inner pointer of a temporary `CString` [INFO] [stdout] --> src/bcf_utils.rs:18:61 [INFO] [stdout] | [INFO] [stdout] 18 | ffi::CString::new(path.as_bytes()).unwrap().as_ptr(), [INFO] [stdout] | ------------------------------------------- ^^^^^^ this pointer will be invalid [INFO] [stdout] | | [INFO] [stdout] | this `CString` is deallocated at the end of the statement, bind it to a variable to extend its lifetime [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(temporary_cstring_as_ptr)]` on by default [INFO] [stdout] = note: pointers do not have a lifetime; when calling `as_ptr` the `CString` will be deallocated at the end of the statement because nothing is referencing it as far as the type system is concerned [INFO] [stdout] = help: for more information, see https://doc.rust-lang.org/reference/destructors.html [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: getting the inner pointer of a temporary `CString` [INFO] [stdout] --> src/bcf_utils.rs:30:61 [INFO] [stdout] | [INFO] [stdout] 30 | ffi::CString::new(path.as_bytes()).unwrap().as_ptr(), [INFO] [stdout] | ------------------------------------------- ^^^^^^ this pointer will be invalid [INFO] [stdout] | | [INFO] [stdout] | this `CString` is deallocated at the end of the statement, bind it to a variable to extend its lifetime [INFO] [stdout] | [INFO] [stdout] = note: pointers do not have a lifetime; when calling `as_ptr` the `CString` will be deallocated at the end of the statement because nothing is referencing it as far as the type system is concerned [INFO] [stdout] = help: for more information, see https://doc.rust-lang.org/reference/destructors.html [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 4 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 4 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 1m 26s [INFO] running `Command { std: "docker" "inspect" "1da0da60de8949f9133737b4c3ccecd7a96734173a45d3197727a970ccfdb1b2", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "1da0da60de8949f9133737b4c3ccecd7a96734173a45d3197727a970ccfdb1b2", kill_on_drop: false }` [INFO] [stdout] 1da0da60de8949f9133737b4c3ccecd7a96734173a45d3197727a970ccfdb1b2